-- dump date 20111121_011629 -- class Genbank::misc_feature -- table misc_feature_note -- id note 266264000001 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 266264000002 DNA binding residues; other site 266264000003 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 266264000004 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...; Region: ParA; cd02042 266264000005 P-loop; other site 266264000006 Magnesium ion binding site; other site 266264000007 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...; Region: ParA; cd02042 266264000008 Magnesium ion binding site; other site 266264000009 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 266264000010 ParB-like nuclease domain; Region: ParBc; cl02129 266264000011 Initiator Replication protein; Region: Rep_3; cl03080 266264000012 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 266264000013 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 266264000014 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 266264000015 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264000016 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 266264000017 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 266264000018 Domain of unknown function (DUF1814); Region: DUF1814; cl00973 266264000019 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 266264000020 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 266264000021 PIN domain; Region: PIN; cl09128 266264000022 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 266264000023 Active Sites; other site 266264000024 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 266264000025 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 266264000026 DNA binding site; other site 266264000027 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 266264000028 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...; Region: DnaJ; cd06257 266264000029 HSP70 interaction site; other site 266264000030 DnaJ C terminal region; Region: DnaJ_C; pfam01556 266264000031 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 266264000032 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...; Region: gram_neg_porins; cd00342 266264000033 trimer interface; other site 266264000034 eyelet of channel; other site 266264000035 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264000036 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 266264000037 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...; Region: metallo-dependent_hydrolases; cl00281 266264000038 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 266264000039 active site; other site 266264000040 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 266264000041 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 266264000042 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 266264000043 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 266264000044 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264000045 Transcriptional regulators [Transcription]; Region: FadR; COG2186 266264000046 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264000047 DNA-binding site; other site 266264000048 FCD domain; Region: FCD; cl11656 266264000049 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264000050 MerT mercuric transport protein; Region: MerT; cl03578 266264000051 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 266264000052 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 266264000053 DNA binding residues; other site 266264000054 dimer interface; other site 266264000055 mercury binding site; other site 266264000056 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 266264000057 Cytochrome c; Region: Cytochrom_C; cl11414 266264000058 Cytochrome c [Energy production and conversion]; Region: COG3258 266264000059 Cytochrome c; Region: Cytochrom_C; cl11414 266264000060 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 266264000061 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 266264000062 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 266264000063 Int/Topo IB signature motif; other site 266264000064 transcriptional regulator, AraC family (fragment) 266264000065 MgtC family; Region: MgtC; pfam02308 266264000066 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 266264000067 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 266264000068 Outer membrane efflux protein; Region: OEP; pfam02321 266264000069 Outer membrane efflux protein; Region: OEP; pfam02321 266264000070 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; cl11392 266264000071 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 266264000072 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 266264000073 Cation efflux family; Region: Cation_efflux; cl00316 266264000074 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 266264000075 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 266264000076 active site; other site 266264000077 phosphorylation site; other site 266264000078 intermolecular recognition site; other site 266264000079 dimerization interface; other site 266264000080 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...; Region: trans_reg_C; cd00383 266264000081 DNA binding site; other site 266264000082 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 266264000083 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264000084 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 trans-...; Region: HisKA; cd00082 266264000085 dimer interface; other site 266264000086 phosphorylation site; other site 266264000087 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 266264000088 ATP binding site; other site 266264000089 Mg2+ binding site; other site 266264000090 G-X-G motif; other site 266264000091 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...; Region: gram_neg_porins; cd00342 266264000092 trimer interface; other site 266264000093 eyelet of channel; other site 266264000094 putative transposase OrfB; Reviewed; Region: PHA02517 266264000095 Integrase core domain; Region: rve; cl01316 266264000096 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; cl01116 266264000097 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 266264000098 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl09471 266264000099 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264000100 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 266264000101 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; cl11391 266264000102 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 266264000103 Predicted membrane protein [Function unknown]; Region: COG4640 266264000104 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 266264000105 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 266264000106 Ligand binding site; other site 266264000107 Putative Catalytic site; other site 266264000108 DXD motif; other site 266264000109 GtrA-like protein; Region: GtrA; cl00971 266264000110 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 266264000111 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 266264000112 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 266264000113 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; cl01116 266264000114 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264000115 Integrase core domain; Region: rve; cl01316 266264000116 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 266264000117 active site; other site 266264000118 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 266264000119 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 266264000120 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 266264000121 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 266264000122 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264000123 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; cl11391 266264000124 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 266264000125 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 266264000126 DNA binding residues; other site 266264000127 dimer interface; other site 266264000128 putative metal binding site; other site 266264000129 Cytochrome c; Region: Cytochrom_C; cl11414 266264000130 Iron permease FTR1 family; Region: FTR1; cl00475 266264000131 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264000132 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264000133 Integrase core domain; Region: rve; cl01316 266264000134 Transposase; Region: Transposase_7; pfam01526 266264000135 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264000136 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264000137 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 266264000138 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 266264000139 MerE protein; Region: MerE; cl04911 266264000140 transcriptional regulator MerD; Provisional; Region: PRK13749 266264000141 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 266264000142 DNA binding residues; other site 266264000143 putative dimer interface; other site 266264000144 putative mercuric reductase; Provisional; Region: PRK13748 266264000145 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 266264000146 metal-binding site; other site 266264000147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000148 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 266264000149 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 266264000150 metal-binding site; other site 266264000151 MerT mercuric transport protein; Region: MerT; cl03578 266264000152 putative transcriptional regulator MerR; Provisional; Region: PRK13752 266264000153 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 266264000154 DNA binding residues; other site 266264000155 dimer interface; other site 266264000156 mercury binding site; other site 266264000157 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...; Region: DsbA_DsbC_DsbG; cd03020 266264000158 dimerization domain; other site 266264000159 dimer interface; other site 266264000160 catalytic residues; other site 266264000161 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 266264000162 TraU protein; Region: TraU; cl06067 266264000163 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 266264000164 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 266264000165 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264000166 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 266264000167 Phd_YefM; Region: PhdYeFM; cl09153 266264000168 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 266264000169 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264000170 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 266264000171 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264000172 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 266264000173 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...; Region: PBPb; cl11400 266264000174 Outer membrane efflux protein; Region: OEP; pfam02321 266264000175 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 266264000176 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264000177 H+ Antiporter protein; Region: 2A0121; TIGR00900 266264000178 putative substrate translocation pore; other site 266264000179 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl09471 266264000180 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-...; Region: CBS_pair; cl10010 266264000181 PAS fold; Region: PAS; pfam00989 266264000182 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 266264000183 putative active site; other site 266264000184 heme pocket; other site 266264000185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264000186 metal binding site; other site 266264000187 active site; other site 266264000188 I-site; other site 266264000189 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 266264000190 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264000191 putative substrate translocation pore; other site 266264000192 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; cl12011 266264000193 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 266264000194 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 266264000195 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 266264000196 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 266264000197 Outer membrane efflux protein; Region: OEP; pfam02321 266264000198 hypothetical protein; Provisional; Region: PRK08317 266264000199 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; cl12011 266264000200 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 266264000201 GtrA-like protein; Region: GtrA; cl00971 266264000202 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 266264000203 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 266264000204 Ligand binding site; other site 266264000205 Putative Catalytic site; other site 266264000206 DXD motif; other site 266264000207 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...; Region: gram_neg_porins; cd00342 266264000208 trimer interface; other site 266264000209 eyelet of channel; other site 266264000210 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 266264000211 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 266264000212 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264000213 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; cl11391 266264000214 Protein of unknown function, DUF; Region: DUF411; cl01142 266264000215 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 266264000216 Cytochrome c; Region: Cytochrom_C; cl11414 266264000217 Multicopper oxidase; Region: Cu-oxidase; cl11412 266264000218 Copper resistance protein D; Region: CopD; cl00563 266264000219 Copper resistance protein CopC; Region: CopC; cl01012 266264000220 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 266264000221 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 266264000222 Multicopper oxidase; Region: Cu-oxidase; cl11412 266264000223 Multicopper oxidase; Region: Cu-oxidase; cl11412 266264000224 Multicopper oxidase; Region: Cu-oxidase; cl11412 266264000225 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 266264000226 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 266264000227 active site; other site 266264000228 phosphorylation site; other site 266264000229 intermolecular recognition site; other site 266264000230 dimerization interface; other site 266264000231 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...; Region: trans_reg_C; cd00383 266264000232 DNA binding site; other site 266264000233 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 266264000234 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264000235 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 trans-...; Region: HisKA; cd00082 266264000236 dimer interface; other site 266264000237 phosphorylation site; other site 266264000238 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 266264000239 ATP binding site; other site 266264000240 Mg2+ binding site; other site 266264000241 G-X-G motif; other site 266264000242 Copper resistance protein K; Region: CopK; pfam11525 266264000243 Cytochrome c; Region: Cytochrom_C; cl11414 266264000244 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 266264000245 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 266264000246 Peptidase M30; Region: Peptidase_M30; pfam10460 266264000247 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 higher-...; Region: HU_IHF; cl00257 266264000248 Phage integrase protein; Region: DUF3701; pfam12482 266264000249 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 266264000250 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 266264000251 Int/Topo IB signature motif; other site 266264000252 putative transposase OrfB; Reviewed; Region: PHA02517 266264000253 Integrase core domain; Region: rve; cl01316 266264000254 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; cl01116 266264000255 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 266264000256 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 266264000257 non-specific DNA binding site; other site 266264000258 salt bridge; other site 266264000259 sequence-specific DNA binding site; other site 266264000260 putative transposase OrfB; Reviewed; Region: PHA02517 266264000261 Integrase core domain; Region: rve; cl01316 266264000262 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 266264000263 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 266264000264 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...; Region: ParA; cd02042 266264000265 P-loop; other site 266264000266 Magnesium ion binding site; other site 266264000267 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...; Region: ParA; cd02042 266264000268 Magnesium ion binding site; other site 266264000269 ParB-like partition proteins; Region: parB_part; TIGR00180 266264000270 ParB-like nuclease domain; Region: ParBc; cl02129 266264000271 RES domain; Region: RES; cl02411 266264000272 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 266264000273 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 266264000274 Int/Topo IB signature motif; other site 266264000275 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; cl09741 266264000276 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 266264000277 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins,...; Region: HNHc; cd00085 266264000278 active site; other site 266264000279 Integrase core domain; Region: rve; cl01316 266264000280 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264000281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264000282 Cupin domain; Region: Cupin_2; cl09118 266264000283 Chlorite dismutase; Region: Chlor_dismutase; cl01280 266264000284 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 266264000285 putative transcriptional regulator MerR; Provisional; Region: PRK13752 266264000286 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 266264000287 DNA binding residues; other site 266264000288 dimer interface; other site 266264000289 mercury binding site; other site 266264000290 MerT mercuric transport protein; Region: MerT; cl03578 266264000291 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 266264000292 metal-binding site; other site 266264000293 putative mercuric reductase; Provisional; Region: PRK13748 266264000294 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 266264000295 metal-binding site; other site 266264000296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000297 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 266264000298 transcriptional regulator MerD; Provisional; Region: PRK13749 266264000299 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 266264000300 DNA binding residues; other site 266264000301 putative dimer interface; other site 266264000302 MerE protein; Region: MerE; cl04911 266264000303 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 266264000304 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 266264000305 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 266264000306 multiple promoter invertase; Provisional; Region: mpi; PRK13413 266264000307 catalytic residues; other site 266264000308 catalytic nucleophile; other site 266264000309 Presynaptic Site I dimer interface; other site 266264000310 Synaptic Antiparallel dimer interface; other site 266264000311 Synaptic Flat tetramer interface; other site 266264000312 Synaptic Site I dimer interface; other site 266264000313 DNA binding site; other site 266264000314 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 266264000315 DNA-binding interface; other site 266264000316 Transposase; Region: Transposase_7; pfam01526 266264000317 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264000318 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264000319 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 higher-...; Region: HU_IHF; cl00257 266264000320 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 266264000321 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 266264000322 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 266264000323 Int/Topo IB signature motif; other site 266264000324 Uncharacterized conserved protein [Function unknown]; Region: COG3391 266264000325 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 266264000326 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 266264000327 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 266264000328 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264000329 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 266264000330 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 266264000331 active site residue; other site 266264000332 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 266264000333 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 266264000334 Chromate transporter; Region: Chromate_transp; cl00902 266264000335 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 266264000336 Chromate transporter; Region: Chromate_transp; cl00902 266264000337 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 266264000338 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 266264000339 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 266264000340 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 266264000341 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264000342 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...; Region: Sigma70_r4; cd06171 266264000343 DNA binding residues; other site 266264000344 Outer membrane efflux protein; Region: OEP; pfam02321 266264000345 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 266264000346 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 266264000347 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 266264000348 EamA-like transporter family; Region: EamA; cl01037 266264000349 Transposase; Region: Transposase_7; pfam01526 266264000350 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264000351 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 266264000352 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 266264000353 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 266264000354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264000355 Walker A/P-loop; other site 266264000356 ATP binding site; other site 266264000357 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 266264000358 active site; other site 266264000359 metal binding site; other site 266264000360 Protein of unknown function, DUF583; Region: DUF583; cl09137 266264000361 Domain of unknown function (DUF932); Region: DUF932; cl12129 266264000362 Rickettsia 17 kDa surface antigen; Region: Rick_17kDa_Anti; cl10470 266264000363 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 266264000364 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 266264000365 ATP binding site; other site 266264000366 substrate interface; other site 266264000367 Domain of unknown function (DUF2016); Region: DUF2016; cl09677 266264000368 PRTRC system protein B; Region: PRTRC_B; TIGR03737 266264000369 PRTRC system protein F; Region: PRTRC_F; TIGR03742 266264000370 PRTRC system protein C; Region: PRTRC_C; TIGR03738 266264000371 PRTRC system protein E; Region: PRTRC_E; TIGR03741 266264000372 ParB-like nuclease domain; Region: ParBc; cl02129 266264000373 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 266264000374 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 266264000375 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 266264000376 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264000377 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 266264000378 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 266264000379 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 266264000380 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 266264000381 DNA binding site; other site 266264000382 Int/Topo IB signature motif; other site 266264000383 active site; other site 266264000384 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 266264000385 Int/Topo IB signature motif; other site 266264000386 active site; other site 266264000387 DNA binding site; other site 266264000388 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 266264000389 DNA binding site; other site 266264000390 Int/Topo IB signature motif; other site 266264000391 active site; other site 266264000392 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 266264000393 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 266264000394 IstB-like ATP binding N-terminal; Region: IstB_N; pfam08483 266264000395 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...; Region: AAA; cd00009 266264000396 Walker A motif; other site 266264000397 ATP binding site; other site 266264000398 Walker B motif; other site 266264000399 arginine finger; other site 266264000400 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...; Region: Sigma70_r4; cl01055 266264000401 Integrase core domain; Region: rve; cl01316 266264000402 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 266264000403 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 266264000404 RHS Repeat; Region: RHS_repeat; cl11982 266264000405 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264000406 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 266264000407 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 266264000408 RHS Repeat; Region: RHS_repeat; cl11982 266264000409 RHS Repeat; Region: RHS_repeat; cl11982 266264000410 RHS Repeat; Region: RHS_repeat; cl11982 266264000411 RHS Repeat; Region: RHS_repeat; cl11982 266264000412 RHS Repeat; Region: RHS_repeat; cl11982 266264000413 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl01833 266264000414 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; cl12011 266264000415 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 266264000416 active site; other site 266264000417 substrate binding site; other site 266264000418 Mg2+ binding site; other site 266264000419 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 higher-...; Region: HU_IHF; cd00591 266264000420 IHF dimer interface; other site 266264000421 IHF - DNA interface; other site 266264000422 Protein of unknown function (DUF1389); Region: DUF1389; pfam07146 266264000423 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 266264000424 Int/Topo IB signature motif; other site 266264000425 active site; other site 266264000426 catalytic residues; other site 266264000427 DNA binding site; other site 266264000428 StbA protein; Region: StbA; pfam06406 266264000429 PRTRC system protein D; Region: PRTRC_D; TIGR03739 266264000430 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; cl07038 266264000431 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 266264000432 dimer interface; other site 266264000433 ssDNA binding site; other site 266264000434 tetramer (dimer of dimers) interface; other site 266264000435 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 266264000436 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264000437 Integrase core domain; Region: rve; cl01316 266264000438 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 266264000439 PilS N terminal; Region: PilS; pfam08805 266264000440 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 266264000441 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264000442 Walker A motif; other site 266264000443 ATP binding site; other site 266264000444 Walker B motif; other site 266264000445 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 266264000446 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 266264000447 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 266264000448 N-acetyl-D-glucosamine binding site; other site 266264000449 catalytic residue; other site 266264000450 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 266264000451 VirB7 interaction site; other site 266264000452 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 266264000453 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 266264000454 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 266264000455 VirB7 interaction site; other site 266264000456 VirB8 protein; Region: VirB8; cl01500 266264000457 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 266264000458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264000459 Walker A motif; other site 266264000460 ATP binding site; other site 266264000461 Walker B motif; other site 266264000462 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 266264000463 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 266264000464 VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 266264000465 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 266264000466 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 266264000467 type IV conjugative transfer system coupling protein TraD; Region: TraD_Ftype; TIGR02759 266264000468 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264000469 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 266264000470 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264000471 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264000472 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 266264000473 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...; Region: AAA; cd00009 266264000474 Walker A motif; other site 266264000475 ATP binding site; other site 266264000476 Walker B motif; other site 266264000477 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264000478 arginine finger; other site 266264000479 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 266264000480 DnaA box-binding interface; other site 266264000481 DNA polymerase III subunit beta; Validated; Region: PRK05643 266264000482 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...; Region: beta_clamp; cd00140 266264000483 putative DNA binding surface; other site 266264000484 dimer interface; other site 266264000485 beta-clamp/clamp loader binding surface; other site 266264000486 beta-clamp/translesion DNA polymerase binding surface; other site 266264000487 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]; Region: GyrB; COG0187 266264000488 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 266264000489 ATP binding site; other site 266264000490 Mg2+ binding site; other site 266264000491 G-X-G motif; other site 266264000492 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 266264000493 anchoring element; other site 266264000494 dimer interface; other site 266264000495 ATP binding site; other site 266264000496 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 266264000497 active site; other site 266264000498 putative metal-binding site; other site 266264000499 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 266264000500 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 266264000501 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 266264000502 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 266264000503 active site; other site 266264000504 EamA-like transporter family; Region: EamA; cl01037 266264000505 Cupin domain; Region: Cupin_2; cl09118 266264000506 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 266264000507 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264000508 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...; Region: TM_PBP2; cd06261 266264000509 dimer interface; other site 266264000510 conserved gate region; other site 266264000511 putative PBP binding loops; other site 266264000512 ABC-ATPase subunit interface; other site 266264000513 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,...; Region: TM_PBP2; cl00427 266264000514 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 266264000515 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264000516 Walker A/P-loop; other site 266264000517 ATP binding site; other site 266264000518 Q-loop/lid; other site 266264000519 ABC transporter signature motif; other site 266264000520 Walker B; other site 266264000521 D-loop; other site 266264000522 H-loop/switch region; other site 266264000523 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 266264000524 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 266264000525 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00737 266264000526 Protein of unknown function DUF72; Region: DUF72; cl00777 266264000527 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; cl12029 266264000528 DEAD-like helicases superfamily; Region: DEXDc; smart00487 266264000529 ATP binding site; other site 266264000530 putative Mg++ binding site; other site 266264000531 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-...; Region: CBS_pair_10; cd04623 266264000532 FOG: CBS domain [General function prediction only]; Region: COG0517 266264000533 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264000534 putative substrate translocation pore; other site 266264000535 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...; Region: GSH_Peroxidase; cd00340 266264000536 catalytic residues; other site 266264000537 dimer interface; other site 266264000538 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264000539 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 266264000540 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264000541 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 266264000542 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264000543 Cupin domain; Region: Cupin_2; cl09118 266264000544 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264000545 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264000546 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264000547 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264000548 putative substrate translocation pore; other site 266264000549 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264000550 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 266264000551 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...; Region: PBPb; cl11400 266264000552 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264000553 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 266264000554 active site; other site 266264000555 phosphorylation site; other site 266264000556 intermolecular recognition site; other site 266264000557 dimerization interface; other site 266264000558 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...; Region: trans_reg_C; cd00383 266264000559 DNA binding site; other site 266264000560 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 266264000561 active site; other site 266264000562 phosphorylation site; other site 266264000563 intermolecular recognition site; other site 266264000564 dimerization interface; other site 266264000565 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...; Region: trans_reg_C; cd00383 266264000566 DNA binding site; other site 266264000567 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...; Region: gram_neg_porins; cd00342 266264000568 trimer interface; other site 266264000569 eyelet of channel; other site 266264000570 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; cl01116 266264000571 putative transposase OrfB; Reviewed; Region: PHA02517 266264000572 Integrase core domain; Region: rve; cl01316 266264000573 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...; Region: gram_neg_porins; cd00342 266264000574 trimer interface; other site 266264000575 eyelet of channel; other site 266264000576 Septum formation topological specificity factor MinE; Region: MinE; cl00538 266264000577 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 266264000578 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...; Region: MinD; cd02036 266264000579 Switch I; other site 266264000580 Switch II; other site 266264000581 ADP binding residues; other site 266264000582 septum formation inhibitor; Reviewed; Region: PRK01973 266264000583 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 266264000584 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 266264000585 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 266264000586 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 266264000587 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 266264000588 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264000589 K+-transporting ATPase, c chain; Region: KdpC; cl00944 266264000590 sensor protein KdpD; Provisional; Region: PRK10490 266264000591 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 266264000592 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 266264000593 Ligand Binding Site; other site 266264000594 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 trans-...; Region: HisKA; cd00082 266264000595 phosphorylation site; other site 266264000596 dimer interface; other site 266264000597 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 266264000598 ATP binding site; other site 266264000599 Mg2+ binding site; other site 266264000600 G-X-G motif; other site 266264000601 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 266264000602 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 266264000603 active site; other site 266264000604 phosphorylation site; other site 266264000605 intermolecular recognition site; other site 266264000606 dimerization interface; other site 266264000607 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...; Region: trans_reg_C; cd00383 266264000608 DNA binding site; other site 266264000609 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 266264000610 Uncharacterized conserved protein [Function unknown]; Region: COG2308 266264000611 Domain of unknown function (DUF404); Region: DUF404; pfam04169 266264000612 Domain of unknown function (DUF407); Region: DUF407; pfam04174 266264000613 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 266264000614 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 266264000615 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 266264000616 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 266264000617 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 266264000618 GatB domain; Region: GatB_Yqey; cl11497 266264000619 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 266264000620 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 266264000621 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; cl11426 266264000622 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 266264000623 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 266264000624 rod shape-determining protein MreB; Provisional; Region: PRK13927 266264000625 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 266264000626 ATP binding site; other site 266264000627 Cell division protein FtsA; Region: FtsA; cl11496 266264000628 rod shape-determining protein MreC; Provisional; Region: PRK13922 266264000629 rod shape-determining protein MreC; Region: MreC; pfam04085 266264000630 rod shape-determining protein MreD; Region: MreD; cl01087 266264000631 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 266264000632 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 266264000633 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 266264000634 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 266264000635 Protein of unknown function, DUF484; Region: DUF484; cl01228 266264000636 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 266264000637 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 266264000638 DNA binding site; other site 266264000639 Int/Topo IB signature motif; other site 266264000640 active site; other site 266264000641 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264000642 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264000643 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 266264000644 dimerization interface; other site 266264000645 substrate binding pocket; other site 266264000646 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 266264000647 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 266264000648 lipoyl synthase; Provisional; Region: PRK05481 266264000649 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; cl14056 266264000650 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 266264000651 Allophanate hydrolase subunit 1; Region: AHS1; cl00896 266264000652 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 266264000653 LamB/YcsF family; Region: LamB_YcsF; cl00664 266264000654 Protein of unknown function (DUF969); Region: DUF969; cl01573 266264000655 Protein of unknown function (DUF979); Region: DUF979; cl01572 266264000656 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 266264000657 putative substrate binding pocket; other site 266264000658 AC domain interface; other site 266264000659 catalytic triad; other site 266264000660 AB domain interface; other site 266264000661 interchain disulfide; other site 266264000662 VanZ like family; Region: VanZ; cl01971 266264000663 Protein of unknown function (DUF330); Region: DUF330; cl01135 266264000664 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 266264000665 mce related protein; Region: MCE; pfam02470 266264000666 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 266264000667 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 266264000668 Walker A/P-loop; other site 266264000669 ATP binding site; other site 266264000670 Q-loop/lid; other site 266264000671 ABC transporter signature motif; other site 266264000672 Walker B; other site 266264000673 D-loop; other site 266264000674 H-loop/switch region; other site 266264000675 Domain of unknown function DUF140; Region: DUF140; cl00510 266264000676 biotin--protein ligase; Provisional; Region: PRK06955 266264000677 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 266264000678 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 266264000679 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 266264000680 Sporulation related domain; Region: SPOR; cl10051 266264000681 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 266264000682 active site; other site 266264000683 nucleotide binding site; other site 266264000684 HIGH motif; other site 266264000685 KMSKS motif; other site 266264000686 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 266264000687 dinuclear metal binding motif; other site 266264000688 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 266264000689 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 266264000690 active site; other site 266264000691 nucleophile elbow; other site 266264000692 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 266264000693 substrate binding site; other site 266264000694 oxyanion hole (OAH) forming residues; other site 266264000695 trimer interface; other site 266264000696 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; cl11392 266264000697 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264000698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264000699 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264000700 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264000701 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 266264000702 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 266264000703 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 266264000704 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 266264000705 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 266264000706 active site residue; other site 266264000707 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 266264000708 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 266264000709 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 266264000710 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 266264000711 substrate binding pocket; other site 266264000712 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 266264000713 B12 binding site; other site 266264000714 cobalt ligand; other site 266264000715 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 266264000716 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264000717 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 266264000718 active site; other site 266264000719 phosphorylation site; other site 266264000720 intermolecular recognition site; other site 266264000721 dimerization interface; other site 266264000722 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...; Region: LuxR_C_like; cd06170 266264000723 DNA binding residues; other site 266264000724 dimerization interface; other site 266264000725 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 266264000726 active site; other site 266264000727 phosphorylation site; other site 266264000728 intermolecular recognition site; other site 266264000729 dimerization interface; other site 266264000730 CHASE3 domain; Region: CHASE3; cl05000 266264000731 Histidine kinase; Region: HisKA_3; pfam07730 266264000732 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 266264000733 ATP binding site; other site 266264000734 Mg2+ binding site; other site 266264000735 G-X-G motif; other site 266264000736 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 266264000737 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 266264000738 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 266264000739 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 266264000740 active site; other site 266264000741 HIGH motif; other site 266264000742 KMSK motif region; other site 266264000743 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 266264000744 tRNA binding surface; other site 266264000745 anticodon binding site; other site 266264000746 Sporulation related domain; Region: SPOR; cl10051 266264000747 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 266264000748 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 266264000749 catalytic residues; other site 266264000750 hinge region; other site 266264000751 alpha helical domain; other site 266264000752 short chain dehydrogenase; Provisional; Region: PRK07024 266264000753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000754 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...; Region: TroA-like; cl00262 266264000755 intersubunit interface; other site 266264000756 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264000757 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 266264000758 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 266264000759 DNA binding residues; other site 266264000760 putative dimer interface; other site 266264000761 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 266264000762 isovaleryl-CoA dehydrogenase; Region: PLN02519 266264000763 substrate binding site; other site 266264000764 FAD binding site; other site 266264000765 catalytic base; other site 266264000766 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 266264000767 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 266264000768 active site clefts; other site 266264000769 zinc binding site; other site 266264000770 dimer interface; other site 266264000771 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 266264000772 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 266264000773 dimer interface; other site 266264000774 active site; other site 266264000775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000776 oxidoreductase; Provisional; Region: PRK12742 266264000777 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264000778 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264000779 active site; other site 266264000780 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 266264000781 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 1,2...; Region: DsbA_HCCA_Iso; cd03022 266264000782 putative catalytic residue; other site 266264000783 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 266264000784 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; cl11391 266264000785 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 266264000786 motif II; other site 266264000787 SEC-C motif; Region: SEC-C; cl12132 266264000788 hypothetical protein; Provisional; Region: PRK04233 266264000789 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 266264000790 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 266264000791 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264000792 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 266264000793 substrate binding site; other site 266264000794 oxyanion hole (OAH) forming residues; other site 266264000795 trimer interface; other site 266264000796 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 266264000797 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 266264000798 inhibitor-cofactor binding pocket; other site 266264000799 pyridoxal 5'-phosphate binding site; other site 266264000800 catalytic residue; other site 266264000801 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 266264000802 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 266264000803 pyridoxal 5'-phosphate binding pocket; other site 266264000804 catalytic residue; other site 266264000805 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 266264000806 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264000807 biotin synthetase; Region: bioB; TIGR00433 266264000808 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 266264000809 FeS/SAM binding site; other site 266264000810 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 266264000811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000812 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 266264000813 putative deacylase active site; other site 266264000814 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 266264000815 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264000816 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 266264000817 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264000818 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 266264000819 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 266264000820 N-terminal plug; other site 266264000821 ligand-binding site; other site 266264000822 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 266264000823 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264000824 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 266264000825 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 266264000826 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 266264000827 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 266264000828 P-loop, Walker A motif; other site 266264000829 Base recognition motif; other site 266264000830 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 266264000831 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 266264000832 metal binding site 2; other site 266264000833 putative DNA binding helix; other site 266264000834 metal binding site 1; other site 266264000835 dimer interface; other site 266264000836 structural Zn2+ binding site; other site 266264000837 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264000838 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 266264000839 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...; Region: PBPb; cl11400 266264000840 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 266264000841 active site; other site 266264000842 HslU subunit interaction site; other site 266264000843 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 266264000844 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...; Region: AAA; cd00009 266264000845 Walker A motif; other site 266264000846 ATP binding site; other site 266264000847 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264000848 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 266264000849 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 266264000850 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 266264000851 active site; other site 266264000852 phosphorylation site; other site 266264000853 intermolecular recognition site; other site 266264000854 dimerization interface; other site 266264000855 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264000856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 266264000857 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 266264000858 ATP binding site; other site 266264000859 Mg2+ binding site; other site 266264000860 G-X-G motif; other site 266264000861 Protein of unknown function (DUF461); Region: DUF461; cl01071 266264000862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264000863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264000864 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 266264000865 dimerization interface; other site 266264000866 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...; Region: AAK_NAGK-C; cd04250 266264000867 feedback inhibition sensing region; other site 266264000868 homohexameric interface; other site 266264000869 nucleotide binding site; other site 266264000870 N-acetyl-L-glutamate binding site; other site 266264000871 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 266264000872 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; cl11391 266264000873 nucleoid occlusion protein; Provisional; Region: slmA; PRK09480 266264000874 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264000875 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 266264000876 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 266264000877 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 266264000878 S-adenosylmethionine binding site; other site 266264000879 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 266264000880 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 266264000881 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 266264000882 muropeptide transporter; Reviewed; Region: ampG; PRK11902 266264000883 Peptidase family M48; Region: Peptidase_M48; cl12018 266264000884 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 266264000885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000886 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 266264000887 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 266264000888 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264000889 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 266264000890 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 266264000891 active site; other site 266264000892 nucleophile elbow; other site 266264000893 Patatin phospholipase; Region: DUF3734; pfam12536 266264000894 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 266264000895 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 266264000896 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 266264000897 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 266264000898 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK08734 266264000899 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 266264000900 putative acyl-acceptor binding pocket; other site 266264000901 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 266264000902 putative acyl-acceptor binding pocket; other site 266264000903 S-adenosylmethionine synthetase; Validated; Region: PRK05250 266264000904 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 266264000905 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 266264000906 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 266264000907 Protein of unknown function (DUF2843); Region: DUF2843; pfam11004 266264000908 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 266264000909 NAD(P) binding site; other site 266264000910 catalytic residues; other site 266264000911 choline dehydrogenase; Validated; Region: PRK02106 266264000912 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 266264000913 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 266264000914 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264000915 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 266264000916 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264000917 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 266264000918 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264000919 active site; other site 266264000920 ThiC family; Region: ThiC; cl08031 266264000921 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 266264000922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000924 Ubiquitin-like proteins; Region: UBQ; cl00155 266264000925 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 266264000926 ThiS interaction site; other site 266264000927 putative active site; other site 266264000928 tetramer interface; other site 266264000929 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- (beta...; Region: TMP_TenI; cd00564 266264000930 thiamine phosphate binding site; other site 266264000931 active site; other site 266264000932 pyrophosphate binding site; other site 266264000933 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 266264000934 CoenzymeA binding site; other site 266264000935 subunit interaction site; other site 266264000936 PHB binding site; other site 266264000937 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 266264000938 dimer interface; other site 266264000939 substrate binding site; other site 266264000940 ATP binding site; other site 266264000941 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 266264000942 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...; Region: AdoHcyase; cd00401 266264000943 oligomerization interface; other site 266264000944 active site; other site 266264000945 NAD+ binding site; other site 266264000946 Membrane protein of unknown function; Region: DUF360; cl00850 266264000947 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...; Region: MTHFR; cd00537 266264000948 FAD binding site; other site 266264000949 TfoX N-terminal domain; Region: TfoX_N; cl01167 266264000950 Ubiquitin-like proteins; Region: UBQ; cl00155 266264000951 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 266264000952 Protein of unknown function DUF82; Region: DUF82; pfam01927 266264000953 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 266264000954 lytic murein transglycosylase; Provisional; Region: PRK11619 266264000955 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 266264000956 N-acetyl-D-glucosamine binding site; other site 266264000957 catalytic residue; other site 266264000958 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 266264000959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000960 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)...; Region: GST_N_1; cd03043 266264000961 putative C-terminal domain interface; other site 266264000962 putative GSH binding site (G-site); other site 266264000963 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 266264000964 putative dimer interface; other site 266264000965 GST_C family, unknown subfamily 3; composed of uncharacterized 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 endogenous...; Region: GST_C_3; cd03194 266264000966 putative substrate binding pocket (H-site); other site 266264000967 putative N-terminal domain interface; other site 266264000968 putative dimer interface; other site 266264000969 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 266264000970 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 266264000971 active site; other site 266264000972 NTP binding site; other site 266264000973 metal binding triad; other site 266264000974 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 266264000975 Uncharacterized conserved protein [Function unknown]; Region: COG1565 266264000976 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 266264000977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264000978 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264000979 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 266264000980 active site; other site 266264000981 C32 tRNA thiolase; Provisional; Region: PRK10696 266264000982 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...; Region: Alpha_ANH_like_II; cd01993 266264000983 Ligand Binding Site; other site 266264000984 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 266264000985 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 266264000986 Substrate binding site; other site 266264000987 Mg++ binding site; other site 266264000988 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 266264000989 active site; other site 266264000990 substrate binding site; other site 266264000991 CoA binding site; other site 266264000992 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 266264000993 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....; Region: GFAT; cd00714 266264000994 glutaminase active site; other site 266264000995 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 266264000996 dimer interface; other site 266264000997 active site; other site 266264000998 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 266264000999 dimer interface; other site 266264001000 active site; other site 266264001001 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 266264001002 Type II transport protein GspH; Region: GspH; pfam12019 266264001003 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 266264001004 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 266264001005 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 266264001006 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 266264001007 legume lectins; Region: lectin_L-type; cl14058 266264001008 homotetramer interaction site; other site 266264001009 carbohydrate binding site; other site 266264001010 metal binding site; other site 266264001011 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 266264001012 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 266264001013 dimerization interface; other site 266264001014 active site; other site 266264001015 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 266264001016 Ferritin-like domain; Region: Ferritin; pfam00210 266264001017 heme binding site; other site 266264001018 ferroxidase pore; other site 266264001019 ferroxidase diiron center; other site 266264001020 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 266264001021 Coenzyme A binding pocket; other site 266264001022 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 266264001023 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 266264001024 NADP binding site; other site 266264001025 dimer interface; other site 266264001026 Cation efflux family; Region: Cation_efflux; cl00316 266264001027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264001028 transcriptional activator TtdR; Provisional; Region: PRK09801 266264001029 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 266264001030 dimerization interface; other site 266264001031 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 266264001032 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 266264001033 substrate binding site; other site 266264001034 ligand binding site; other site 266264001035 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 3...; Region: IPMI_Swivel; cd01577 266264001036 substrate binding site; other site 266264001037 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 266264001038 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 266264001039 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 266264001040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264001041 DNA-binding site; other site 266264001042 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 266264001043 pyridoxal 5'-phosphate binding site; other site 266264001044 homodimer interface; other site 266264001045 catalytic residue; other site 266264001046 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 266264001047 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 266264001048 inhibitor-cofactor binding pocket; other site 266264001049 pyridoxal 5'-phosphate binding site; other site 266264001050 catalytic residue; other site 266264001051 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 266264001052 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 266264001053 tetrameric interface; other site 266264001054 NAD binding site; other site 266264001055 catalytic residues; other site 266264001056 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 266264001057 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 266264001058 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264001059 DNA-binding site; other site 266264001060 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 266264001061 pyridoxal 5'-phosphate binding site; other site 266264001062 homodimer interface; other site 266264001063 catalytic residue; other site 266264001064 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 266264001065 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen...; Region: MM_CoA_mut_B12_BD; cd02071 266264001066 B12 binding site; other site 266264001067 cobalt ligand; other site 266264001068 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 266264001069 Walker A; other site 266264001070 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 266264001071 putative active site; other site 266264001072 putative substrate binding site; other site 266264001073 putative coenzyme B12 binding site; other site 266264001074 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 266264001075 HIT family signature motif; other site 266264001076 catalytic residue; other site 266264001077 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 266264001078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264001079 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264001080 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 266264001081 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 266264001082 ligand binding site; other site 266264001083 flexible hinge region; other site 266264001084 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264001085 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 266264001086 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264001087 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264001088 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 266264001089 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 266264001090 Walker A/P-loop; other site 266264001091 ATP binding site; other site 266264001092 Q-loop/lid; other site 266264001093 ABC transporter signature motif; other site 266264001094 Walker B; other site 266264001095 D-loop; other site 266264001096 H-loop/switch region; other site 266264001097 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 266264001098 TM-ABC transporter signature motif; other site 266264001099 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 266264001100 TM-ABC transporter signature motif; other site 266264001101 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_1; cd06334 266264001102 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264001103 putative ligand binding site; other site 266264001104 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264001105 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 266264001106 Walker A/P-loop; other site 266264001107 ATP binding site; other site 266264001108 Q-loop/lid; other site 266264001109 ABC transporter signature motif; other site 266264001110 Walker B; other site 266264001111 D-loop; other site 266264001112 H-loop/switch region; other site 266264001113 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264001114 Protein of unknown function (DUF454); Region: DUF454; cl01063 266264001115 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 266264001116 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...; Region: NPD_like; cd04730 266264001117 FMN binding site; other site 266264001118 substrate binding site; other site 266264001119 putative catalytic residue; other site 266264001120 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 266264001121 PUA domain; Region: PUA; cl00607 266264001122 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 266264001123 S-adenosylmethionine binding site; other site 266264001124 Protein of unknown function (DUF493); Region: DUF493; cl01102 266264001125 Beta-lactamase; Region: Beta-lactamase; cl01009 266264001126 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 266264001127 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 266264001128 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 266264001129 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 266264001130 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 266264001131 dimer interface; other site 266264001132 [2Fe-2S] cluster binding site; other site 266264001133 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 266264001134 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 266264001135 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 trans...; Region: HisKA; cd00082 266264001136 dimer interface; other site 266264001137 phosphorylation site; other site 266264001138 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 266264001139 ATP binding site; other site 266264001140 Mg2+ binding site; other site 266264001141 G-X-G motif; other site 266264001142 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 266264001143 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 266264001144 active site; other site 266264001145 phosphorylation site; other site 266264001146 intermolecular recognition site; other site 266264001147 dimerization interface; other site 266264001148 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...; Region: AAA; cd00009 266264001149 Walker A motif; other site 266264001150 ATP binding site; other site 266264001151 Walker B motif; other site 266264001152 arginine finger; other site 266264001153 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264001154 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 266264001155 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL) and. PAL and HAL are members of the Lyase class I_like superfamily of enzymes that, catalyze similar beta-elimination reactions and are active as homotetramers. The four active sites...; Region: PAL-HAL; cd00332 266264001156 active sites; other site 266264001157 tetramer interface; other site 266264001158 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 266264001159 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264001160 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...; Region: TlpA_like_family; cd02966 266264001161 catalytic residues; other site 266264001162 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon...; Region: SoxW; cd02951 266264001163 catalytic residues; other site 266264001164 LysE type translocator; Region: LysE; cl00565 266264001165 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 266264001166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264001167 Protein of unknown function (DUF526); Region: DUF526; cl01115 266264001168 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 266264001169 Nitrogen regulatory protein P-II; Region: P-II; cl00412 266264001170 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 266264001171 Glutamate-cysteine ligase; Region: GshA; pfam08886 266264001172 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 266264001173 glutathione synthetase; Provisional; Region: PRK05246 266264001174 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 266264001175 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264001176 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...; Region: PTS_IIA_man; cd00006 266264001177 active pocket/dimerization site; other site 266264001178 active site; other site 266264001179 phosphorylation site; other site 266264001180 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 266264001181 dimerization domain swap beta strand; other site 266264001182 regulatory protein interface; other site 266264001183 active site; other site 266264001184 regulatory phosphorylation site; other site 266264001185 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 266264001186 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 266264001187 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 266264001188 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 266264001189 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 266264001190 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 266264001191 Ferritin-like domain; Region: Ferritin; pfam00210 266264001192 heme binding site; other site 266264001193 ferroxidase pore; other site 266264001194 ferroxidase diiron center; other site 266264001195 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 266264001196 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...; Region: ThiF_MoeB_HesA_family; cd00757 266264001197 ATP binding site; other site 266264001198 substrate interface; other site 266264001199 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 266264001200 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 266264001201 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 266264001202 protein binding site; other site 266264001203 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 266264001204 Catalytic dyad; other site 266264001205 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 266264001206 catalytic core; other site 266264001207 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 266264001208 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 266264001209 GSH binding site; other site 266264001210 catalytic residues; other site 266264001211 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 266264001212 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 266264001213 putative active site; other site 266264001214 putative NTP binding site; other site 266264001215 putative nucleic acid binding site; other site 266264001216 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 266264001217 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins,...; Region: HNHc; cd00085 266264001218 active site; other site 266264001219 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 266264001220 SecA binding site; other site 266264001221 Preprotein binding site; other site 266264001222 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 266264001223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264001224 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 266264001225 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...; Region: PBPb; cl11400 266264001226 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 266264001227 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 266264001228 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264001229 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 266264001230 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 266264001231 S-adenosylmethionine binding site; other site 266264001232 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 266264001233 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 266264001234 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 266264001235 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 266264001236 Cytochrome c; Region: Cytochrom_C; cl11414 266264001237 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 266264001238 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 266264001239 Subunit I/III interface; other site 266264001240 D-pathway; other site 266264001241 Subunit I/VIIc interface; other site 266264001242 Subunit I/IV interface; other site 266264001243 Subunit I/II interface; other site 266264001244 Low-spin heme (heme a) binding site; other site 266264001245 Subunit I/VIIa interface; other site 266264001246 Subunit I/VIa interface; other site 266264001247 Dimer interface; other site 266264001248 Putative water exit pathway; other site 266264001249 Binuclear center (heme a3/CuB); other site 266264001250 K-pathway; other site 266264001251 Subunit I/Vb interface; other site 266264001252 Putative proton exit pathway; other site 266264001253 Subunit I/VIb interface; other site 266264001254 Subunit I/VIc interface; other site 266264001255 Electron transfer pathway; other site 266264001256 Subunit I/VIIIb interface; other site 266264001257 Subunit I/VIIb interface; other site 266264001258 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 266264001259 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 266264001260 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 266264001261 Subunit III/VIIa interface; other site 266264001262 Phospholipid binding site; other site 266264001263 Subunit I/III interface; other site 266264001264 Subunit III/VIb interface; other site 266264001265 Subunit III/VIa interface; other site 266264001266 Subunit III/Vb interface; other site 266264001267 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 266264001268 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 266264001269 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl00696 266264001270 UbiA prenyltransferase family; Region: UbiA; cl00337 266264001271 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 266264001272 Cu(I) binding site; other site 266264001273 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 266264001274 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264001275 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...; Region: Sigma70_r4; cl01055 266264001276 Pirin-related protein [General function prediction only]; Region: COG1741 266264001277 Cupin domain; Region: Cupin_2; cl09118 266264001278 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 266264001279 glycosyl transferase family protein; Provisional; Region: PRK08136 266264001280 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 266264001281 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 266264001282 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 266264001283 Walker A/P-loop; other site 266264001284 ATP binding site; other site 266264001285 Q-loop/lid; other site 266264001286 ABC transporter signature motif; other site 266264001287 Walker B; other site 266264001288 D-loop; other site 266264001289 H-loop/switch region; other site 266264001290 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...; Region: TM_PBP2; cd06261 266264001291 dimer interface; other site 266264001292 conserved gate region; other site 266264001293 putative PBP binding loops; other site 266264001294 ABC-ATPase subunit interface; other site 266264001295 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 266264001296 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...; Region: PBPb; cl11400 266264001297 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 266264001298 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 266264001299 active site; other site 266264001300 phosphorylation site; other site 266264001301 intermolecular recognition site; other site 266264001302 dimerization interface; other site 266264001303 ANTAR domain; Region: ANTAR; pfam03861 266264001304 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264001305 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 266264001306 maleylacetoacetate isomerase; Region: maiA; TIGR01262 266264001307 C-terminal domain interface; other site 266264001308 GSH binding site (G-site); other site 266264001309 putative dimer interface; other site 266264001310 GST_C 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_C_Zeta; cd03191 266264001311 dimer interface; other site 266264001312 N-terminal domain interface; other site 266264001313 putative maleylacetoacetate (MAA) substrate binding site (H site); other site 266264001314 Signal recognition particle GTPase [Intracellular trafficking and secretion]; Region: FtsY; COG0552 266264001315 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 266264001316 P loop; other site 266264001317 GTP binding site; other site 266264001318 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 266264001319 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 266264001320 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 266264001321 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 266264001322 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 266264001323 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 266264001324 S-adenosylmethionine binding site; other site 266264001325 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 266264001326 Phosphopantetheine adenylyltransferase; Region: PPAT_a; cd02163 266264001327 active site; other site 266264001328 substrate binding site; other site 266264001329 active site motif; other site 266264001330 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 266264001331 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 266264001332 putative active site; other site 266264001333 catalytic residue; other site 266264001334 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 266264001335 5S rRNA interface; other site 266264001336 CTC domain interface; other site 266264001337 L16 interface; other site 266264001338 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264001339 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 266264001340 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 266264001341 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 266264001342 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 266264001343 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 266264001344 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 266264001345 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 266264001346 binding surface; other site 266264001347 TPR motif; other site 266264001348 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 266264001349 binding surface; other site 266264001350 TPR motif; other site 266264001351 formamidopyrimidine-DNA glycosylase; Validated; Region: PRK01103 266264001352 Formamidopyrimidine-DNA glycosylase N-terminal domain; Region: Fapy_DNA_glyco; pfam01149 266264001353 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 266264001354 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 266264001355 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264001356 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs),...; Region: Era_like; cd00880 266264001357 Switch II region; other site 266264001358 G3 box; other site 266264001359 G4 box; other site 266264001360 G5 box; other site 266264001361 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 266264001362 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 266264001363 minor groove reading motif; other site 266264001364 helix-hairpin-helix signature motif; other site 266264001365 substrate binding pocket; other site 266264001366 active site; other site 266264001367 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 266264001368 DNA binding and oxoG recognition site; other site 266264001369 Found in ATP-dependent protease La (LON); Region: LON; cl01056 266264001370 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 266264001371 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 266264001372 hypothetical protein; Provisional; Region: PRK11505 266264001373 psiF repeat; Region: PsiF_repeat; pfam07769 266264001374 HPr kinase/phosphorylase; Provisional; Region: PRK05428 266264001375 DRTGG domain; Region: DRTGG; cl12147 266264001376 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-...; Region: HprK_C; cd01918 266264001377 Hpr binding site; other site 266264001378 active site; other site 266264001379 homohexamer subunit interaction site; other site 266264001380 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 266264001381 active site; other site 266264001382 phosphorylation site; other site 266264001383 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 266264001384 30S subunit binding site; other site 266264001385 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 266264001386 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 266264001387 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 266264001388 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 266264001389 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 266264001390 Walker A/P-loop; other site 266264001391 ATP binding site; other site 266264001392 Q-loop/lid; other site 266264001393 ABC transporter signature motif; other site 266264001394 Walker B; other site 266264001395 D-loop; other site 266264001396 H-loop/switch region; other site 266264001397 OstA-like protein; Region: OstA; cl00844 266264001398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 266264001399 Protein of unknown function (DUF1239); Region: DUF1239; pfam06835 266264001400 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 266264001401 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 5-...; Region: SIS_Kpsf; cd05014 266264001402 putative active site; other site 266264001403 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 266264001404 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 266264001405 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 266264001406 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 266264001407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264001408 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; cl09110 266264001409 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 266264001410 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 266264001411 conserved cys residue; other site 266264001412 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264001413 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 266264001414 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 266264001415 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 266264001416 PhoU domain; Region: PhoU; pfam01895 266264001417 PhoU domain; Region: PhoU; pfam01895 266264001418 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 266264001419 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 266264001420 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 266264001421 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 266264001422 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264001423 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264001424 putative substrate translocation pore; other site 266264001425 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 266264001426 dimer interface; other site 266264001427 ssDNA binding site; other site 266264001428 tetramer (dimer of dimers) interface; other site 266264001429 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 266264001430 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 266264001431 DNA binding site; other site 266264001432 Int/Topo IB signature motif; other site 266264001433 active site; other site 266264001434 catalytic residues; other site 266264001435 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264001436 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264001437 Integrase core domain; Region: rve; cl01316 266264001438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 266264001439 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 266264001440 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264001441 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 266264001442 catalytic residues; other site 266264001443 Membrane transport protein; Region: Mem_trans; cl09117 266264001444 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 266264001445 Low molecular weight phosphatase family;; Region: LMWPc; cd00115 266264001446 Active site; other site 266264001447 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 266264001448 putative DNA binding site; other site 266264001449 dimerization interface; other site 266264001450 putative Zn2+ binding site; other site 266264001451 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 266264001452 S-adenosylmethionine binding site; other site 266264001453 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...; Region: PBPb; cd00134 266264001454 substrate binding pocket; other site 266264001455 membrane-bound complex binding site; other site 266264001456 hinge residues; other site 266264001457 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 266264001458 N-acetyl-D-glucosamine binding site; other site 266264001459 catalytic residue; other site 266264001460 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264001461 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264001462 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264001463 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 266264001464 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264001465 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264001466 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 266264001467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264001468 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 266264001469 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 266264001470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264001471 putative substrate translocation pore; other site 266264001472 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264001473 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...; Region: PBPb; cd00134 266264001474 substrate binding pocket; other site 266264001475 membrane-bound complex binding site; other site 266264001476 hinge residues; other site 266264001477 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 266264001478 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...; Region: SIS_RpiR; cd05013 266264001479 putative active site; other site 266264001480 hypothetical protein; Provisional; Region: PRK07483 266264001481 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 266264001482 inhibitor-cofactor binding pocket; other site 266264001483 pyridoxal 5'-phosphate binding site; other site 266264001484 catalytic residue; other site 266264001485 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 266264001486 aspartate aminotransferase; Provisional; Region: PRK06108 266264001487 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 266264001488 pyridoxal 5'-phosphate binding site; other site 266264001489 homodimer interface; other site 266264001490 catalytic residue; other site 266264001491 NodT family; Region: outer_NodT; TIGR01845 266264001492 Outer membrane efflux protein; Region: OEP; pfam02321 266264001493 Outer membrane efflux protein; Region: OEP; pfam02321 266264001494 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 266264001495 ABC-2 type transporter; Region: ABC2_membrane; cl11417 266264001496 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 266264001497 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 266264001498 Walker A/P-loop; other site 266264001499 ATP binding site; other site 266264001500 Q-loop/lid; other site 266264001501 ABC transporter signature motif; other site 266264001502 Walker B; other site 266264001503 D-loop; other site 266264001504 H-loop/switch region; other site 266264001505 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264001506 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264001507 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264001508 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 266264001509 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 266264001510 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 266264001511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 266264001512 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 266264001513 threonine dehydratase; Reviewed; Region: PRK09224 266264001514 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 266264001515 tetramer interface; other site 266264001516 pyridoxal 5'-phosphate binding site; other site 266264001517 catalytic residue; other site 266264001518 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 266264001519 putative Ile/Val binding site; other site 266264001520 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 266264001521 putative Ile/Val binding site; other site 266264001522 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; cl11391 266264001523 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 266264001524 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 266264001525 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 266264001526 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 266264001527 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...; Region: GT1_TPS; cd03788 266264001528 active site; other site 266264001529 homotetramer interface; other site 266264001530 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 266264001531 Ligand binding site; other site 266264001532 metal binding site; other site 266264001533 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 266264001534 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 266264001535 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 266264001536 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 266264001537 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 266264001538 metal ion-dependent adhesion site (MIDAS); other site 266264001539 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...; Region: AAA; cd00009 266264001540 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 266264001541 Walker A motif; other site 266264001542 ATP binding site; other site 266264001543 Walker B motif; other site 266264001544 arginine finger; other site 266264001545 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 266264001546 FAD binding domain; Region: FAD_binding_4; cl10516 266264001547 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 266264001548 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 266264001549 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 266264001550 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 266264001551 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 266264001552 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 266264001553 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 266264001554 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 266264001555 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 266264001556 FAD binding domain; Region: FAD_binding_4; cl10516 266264001557 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 266264001558 C subunit; Region: glycerol3P_GlpC; TIGR03379 266264001559 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 266264001560 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 266264001561 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...; Region: HIT_like; cl00228 266264001562 nucleotide binding site/active site; other site 266264001563 HIT family signature motif; other site 266264001564 catalytic residue; other site 266264001565 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 266264001566 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 266264001567 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 266264001568 Protein of unknown function (DUF971); Region: DUF971; cl01414 266264001569 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 266264001570 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 266264001571 S-adenosylmethionine binding site; other site 266264001572 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; cl12011 266264001573 Tim44-like domain; Region: Tim44; cl09208 266264001574 SCP-2 sterol transfer family; Region: SCP2; cl01225 266264001575 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 266264001576 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 266264001577 Sodium:solute symporter family; Region: SSF; cl00456 266264001578 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 266264001579 Protein of unknown function (DUF502); Region: DUF502; cl01107 266264001580 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 266264001581 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 266264001582 dimer interface; other site 266264001583 anticodon binding site; other site 266264001584 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 266264001585 homodimer interface; other site 266264001586 motif 1; other site 266264001587 active site; other site 266264001588 motif 2; other site 266264001589 GAD domain; Region: GAD; pfam02938 266264001590 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 266264001591 motif 3; other site 266264001592 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 266264001593 nudix motif; other site 266264001594 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 266264001595 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa,...; Region: MobB; cd03116 266264001596 Walker A motif; other site 266264001597 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264001598 cardiolipin synthase 2; Provisional; Region: PRK11263 266264001599 Active site; other site 266264001600 signature motif; other site 266264001601 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264001602 Active site; other site 266264001603 signature motif; other site 266264001604 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264001605 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264001606 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 266264001607 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264001608 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 266264001609 FAD binding site; other site 266264001610 substrate binding site; other site 266264001611 catalytic residues; other site 266264001612 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 266264001613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264001614 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264001615 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 266264001616 substrate binding site; other site 266264001617 oxyanion hole (OAH) forming residues; other site 266264001618 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 266264001619 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 266264001620 dimer interface; other site 266264001621 active site; other site 266264001622 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 266264001623 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264001624 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 266264001625 substrate binding site; other site 266264001626 oxyanion hole (OAH) forming residues; other site 266264001627 trimer interface; other site 266264001628 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...; Region: BFIT_BACH; cd03442 266264001629 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 266264001630 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 266264001631 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 266264001632 Walker A/P-loop; other site 266264001633 ATP binding site; other site 266264001634 Q-loop/lid; other site 266264001635 ABC transporter signature motif; other site 266264001636 Walker B; other site 266264001637 D-loop; other site 266264001638 H-loop/switch region; other site 266264001639 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 266264001640 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...; Region: PBPb; cl11400 266264001641 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 266264001642 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 266264001643 Walker A/P-loop; other site 266264001644 ATP binding site; other site 266264001645 Q-loop/lid; other site 266264001646 ABC transporter signature motif; other site 266264001647 Walker B; other site 266264001648 D-loop; other site 266264001649 H-loop/switch region; other site 266264001650 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...; Region: TM_PBP2; cd06261 266264001651 dimer interface; other site 266264001652 conserved gate region; other site 266264001653 putative PBP binding loops; other site 266264001654 ABC-ATPase subunit interface; other site 266264001655 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 266264001656 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264001657 Cysteine dioxygenase type I; Region: CDO_I; cl02350 266264001658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264001659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264001660 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 266264001661 dimerization interface; other site 266264001662 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 266264001663 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 266264001664 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 266264001665 NAD(P) binding site; other site 266264001666 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...; Region: PBPb; cd00134 266264001667 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264001668 substrate binding pocket; other site 266264001669 membrane-bound complex binding site; other site 266264001670 hinge residues; other site 266264001671 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 266264001672 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...; Region: TM_PBP2; cd06261 266264001673 dimer interface; other site 266264001674 conserved gate region; other site 266264001675 putative PBP binding loops; other site 266264001676 ABC-ATPase subunit interface; other site 266264001677 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 266264001678 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...; Region: TM_PBP2; cd06261 266264001679 dimer interface; other site 266264001680 conserved gate region; other site 266264001681 putative PBP binding loops; other site 266264001682 ABC-ATPase subunit interface; other site 266264001683 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 266264001684 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...; Region: ABC_HisP_GlnQ_permeases; cd03262 266264001685 Walker A/P-loop; other site 266264001686 ATP binding site; other site 266264001687 Q-loop/lid; other site 266264001688 ABC transporter signature motif; other site 266264001689 Walker B; other site 266264001690 D-loop; other site 266264001691 H-loop/switch region; other site 266264001692 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 266264001693 putative active site; other site 266264001694 putative dimer interface; other site 266264001695 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 266264001696 MOFRL family; Region: MOFRL; cl01013 266264001697 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 266264001698 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 266264001699 active site; other site 266264001700 substrate binding pocket; other site 266264001701 dimer interface; other site 266264001702 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 266264001703 OsmC-like protein; Region: OsmC; cl00767 266264001704 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 266264001705 23S rRNA interface; other site 266264001706 L3 interface; other site 266264001707 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 266264001708 Protein of unknown function, DUF583; Region: DUF583; cl09137 266264001709 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 266264001710 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 266264001711 hypothetical protein; Provisional; Region: PRK11649 266264001712 Peptidase family M23; Region: Peptidase_M23; pfam01551 266264001713 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 266264001714 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 266264001715 active site; other site 266264001716 HIGH motif; other site 266264001717 dimer interface; other site 266264001718 KMSKS motif; other site 266264001719 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 266264001720 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...; Region: Dtyr_deacylase; cd00563 266264001721 putative active site; other site 266264001722 dimerization interface; other site 266264001723 putative tRNAtyr binding site; other site 266264001724 bacterial/archael PhosphatidylEthanolamine-Binding Protein (PEBP) and its eukarytic homolog Raf Kinase Inhibitor Protein (RKIP) belong to a highly conserved family of phospholipid-binding proteins represented in all three major phylogenetic divisions (...; Region: PEBP_RKIP; cl00227 266264001725 substrate binding site; other site 266264001726 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 266264001727 catalytic core; other site 266264001728 Family of unknown function (DUF500); Region: DUF500; cl01109 266264001729 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 266264001730 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...; Region: AAA; cd00009 266264001731 Walker A motif; other site 266264001732 ATP binding site; other site 266264001733 Walker B motif; other site 266264001734 arginine finger; other site 266264001735 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 266264001736 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 266264001737 RuvA N terminal domain; Region: RuvA_N; pfam01330 266264001738 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 266264001739 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; cl00455 266264001740 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 266264001741 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 266264001742 active site; other site 266264001743 putative DNA-binding cleft; other site 266264001744 dimer interface; other site 266264001745 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 266264001746 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 5-aminoimidazole-4-carboxamide-.; Region: IMPCH; cd01421 266264001747 purine monophosphate binding site; other site 266264001748 dimer interface; other site 266264001749 putative catalytic residues; other site 266264001750 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 266264001751 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 266264001752 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264001753 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 266264001754 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...; Region: DUS_like_FMN; cd02801 266264001755 FMN binding site; other site 266264001756 active site; other site 266264001757 catalytic residues; other site 266264001758 substrate binding site; other site 266264001759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264001760 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 266264001761 proline aminopeptidase P II; Provisional; Region: PRK10879 266264001762 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...; Region: Prolidase; cd01087 266264001763 active site; other site 266264001764 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 266264001765 Substrate binding site; other site 266264001766 metal binding site; other site 266264001767 AzlC protein; Region: AzlC; cl00570 266264001768 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 266264001769 Phosphotransferase enzyme family; Region: APH; pfam01636 266264001770 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 266264001771 Organic solvent tolerance protein; Region: OstA_C; pfam04453 266264001772 SurA N-terminal domain; Region: SurA_N; pfam09312 266264001773 PPIC-type PPIASE domain; Region: Rotamase; cl08278 266264001774 PPIC-type PPIASE domain; Region: Rotamase; cl08278 266264001775 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 266264001776 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 266264001777 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; cl12011 266264001778 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 266264001779 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 266264001780 active site; other site 266264001781 HIGH motif; other site 266264001782 dimer interface; other site 266264001783 KMSKS motif; other site 266264001784 hypothetical protein; Provisional; Region: PRK11272 266264001785 EamA-like transporter family; Region: EamA; cl01037 266264001786 EamA-like transporter family; Region: EamA; cl01037 266264001787 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264001788 Protein of unknown function DUF45; Region: DUF45; cl00636 266264001789 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 266264001790 putative acyl-acceptor binding pocket; other site 266264001791 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 266264001792 active site; other site 266264001793 motif I; other site 266264001794 motif II; other site 266264001795 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 266264001796 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 266264001797 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 266264001798 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 266264001799 dimer interface; other site 266264001800 motif 1; other site 266264001801 active site; other site 266264001802 motif 2; other site 266264001803 motif 3; other site 266264001804 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 266264001805 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 266264001806 putative active site; other site 266264001807 catalytic triad; other site 266264001808 putative dimer interface; other site 266264001809 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 266264001810 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 266264001811 Transporter associated domain; Region: CorC_HlyC; pfam03471 266264001812 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 266264001813 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 266264001814 PhoH-like protein; Region: PhoH; cl12134 266264001815 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 266264001816 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 266264001817 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 266264001818 FeS/SAM binding site; other site 266264001819 TRAM domain; Region: TRAM; cl01282 266264001820 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 266264001821 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 266264001822 Cl- selectivity filter; other site 266264001823 Cl- binding residues; other site 266264001824 pore gating glutamate residue; other site 266264001825 dimer interface; other site 266264001826 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-...; Region: CBS_pair; cd02205 266264001827 helicase 45; Provisional; Region: PTZ00424 266264001828 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 266264001829 ATP binding site; other site 266264001830 Mg++ binding site; other site 266264001831 motif III; other site 266264001832 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 266264001833 nucleotide binding region; other site 266264001834 ATP-binding site; other site 266264001835 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 266264001836 Phosphotransferase enzyme family; Region: APH; pfam01636 266264001837 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 266264001838 Ligand Binding Site; other site 266264001839 transcriptional regulator FimZ; Provisional; Region: PRK09935 266264001840 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....; Region: LuxR_C_like; cd06170 266264001841 DNA binding residues; other site 266264001842 dimerization interface; other site 266264001843 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 266264001844 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 266264001845 pyridoxal 5'-phosphate binding pocket; other site 266264001846 catalytic residue; other site 266264001847 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264001848 putative substrate translocation pore; other site 266264001849 metabolite-proton symporter; Region: 2A0106; TIGR00883 266264001850 Predicted membrane protein [Function unknown]; Region: COG4327; cl01781 266264001851 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 266264001852 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 266264001853 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264001854 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 trans-...; Region: HisKA; cd00082 266264001855 dimer interface; other site 266264001856 phosphorylation site; other site 266264001857 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 266264001858 ATP binding site; other site 266264001859 Mg2+ binding site; other site 266264001860 G-X-G motif; other site 266264001861 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 266264001862 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 266264001863 active site; other site 266264001864 phosphorylation site; other site 266264001865 intermolecular recognition site; other site 266264001866 dimerization interface; other site 266264001867 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...; Region: trans_reg_C; cd00383 266264001868 DNA binding site; other site 266264001869 recombinase A; Provisional; Region: recA; PRK09354 266264001870 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 266264001871 hexamer interface; other site 266264001872 Walker A motif; other site 266264001873 ATP binding site; other site 266264001874 Walker B motif; other site 266264001875 RecX family; Region: RecX; cl00936 266264001876 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 266264001877 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 266264001878 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264001879 CoA-ligase; Region: Ligase_CoA; pfam00549 266264001880 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 266264001881 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264001882 CoA-ligase; Region: Ligase_CoA; pfam00549 266264001883 Integral membrane protein TerC family; Region: TerC; cl10468 266264001884 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 266264001885 Pilin (bacterial filament); Region: Pilin; pfam00114 266264001886 Pilin (bacterial filament); Region: Pilin; pfam00114 266264001887 O-Antigen ligase; Region: Wzy_C; cl04850 266264001888 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 266264001889 MoaC family. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine derivative to the...; Region: MoaC; cl00242 266264001890 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264001891 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 266264001892 Transposase, Mutator family; Region: Transposase_mut; pfam00872 266264001893 MULE transposase domain; Region: MULE; pfam10551 266264001894 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264001895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 266264001896 Integrase core domain; Region: rve; cl01316 266264001897 transposase/IS protein; Provisional; Region: PRK09183 266264001898 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...; Region: AAA; cd00009 266264001899 Walker A motif; other site 266264001900 ATP binding site; other site 266264001901 Walker B motif; other site 266264001902 arginine finger; other site 266264001903 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...; Region: MoaC_PE; cd01420 266264001904 trimer interface; other site 266264001905 dimer interface; other site 266264001906 putative active site; other site 266264001907 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 266264001908 Peptidase family M48; Region: Peptidase_M48; cl12018 266264001909 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 266264001910 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 266264001911 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 266264001912 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 266264001913 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 266264001914 putative active site; other site 266264001915 Zinc-finger domain; Region: zf-CHCC; cl01821 266264001916 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 alpha-...; Region: BCAT_beta_family; cd01557 266264001917 homodimer interface; other site 266264001918 substrate-cofactor binding pocket; other site 266264001919 Aminotransferase class IV; Region: Aminotran_4; pfam01063 266264001920 catalytic residue; other site 266264001921 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 266264001922 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 266264001923 ATP binding site; other site 266264001924 putative Mg++ binding site; other site 266264001925 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 266264001926 nucleotide binding region; other site 266264001927 ATP-binding site; other site 266264001928 amidase; Provisional; Region: PRK06170 266264001929 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; cl11426 266264001930 benzoate transport; Region: 2A0115; TIGR00895 266264001931 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264001932 putative substrate translocation pore; other site 266264001933 AzlC protein; Region: AzlC; cl00570 266264001934 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 266264001935 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...; Region: LuxR_C_like; cl10457 266264001936 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 266264001937 substrate binding site; other site 266264001938 hinge regions; other site 266264001939 ADP binding site; other site 266264001940 catalytic site; other site 266264001941 pyruvate kinase; Provisional; Region: PRK05826 266264001942 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; cl10032 266264001943 domain interfaces; other site 266264001944 active site; other site 266264001945 hypothetical protein; Provisional; Region: PRK08185 266264001946 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...; Region: TBP_aldolase_IIB; cd00947 266264001947 intersubunit interface; other site 266264001948 active site; other site 266264001949 zinc binding site; other site 266264001950 Na+ binding site; other site 266264001951 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 266264001952 ATP binding site; other site 266264001953 active site; other site 266264001954 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 266264001955 substrate binding site; other site 266264001956 AIR carboxylase; Region: AIRC; cl00310 266264001957 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 266264001958 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264001959 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 266264001960 SUA5 domain; Region: SUA5; pfam03481 266264001961 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl03453 266264001962 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 266264001963 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 266264001964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264001965 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264001966 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 266264001967 dimerization interface; other site 266264001968 NodT family; Region: outer_NodT; TIGR01845 266264001969 Outer membrane efflux protein; Region: OEP; pfam02321 266264001970 Outer membrane efflux protein; Region: OEP; pfam02321 266264001971 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 266264001972 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 266264001973 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 266264001974 MMPL family; Region: MMPL; cl12044 266264001975 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 266264001976 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 266264001977 osmolarity response regulator; Provisional; Region: ompR; PRK09468 266264001978 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 266264001979 active site; other site 266264001980 phosphorylation site; other site 266264001981 intermolecular recognition site; other site 266264001982 dimerization interface; other site 266264001983 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...; Region: trans_reg_C; cd00383 266264001984 DNA binding site; other site 266264001985 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 266264001986 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264001987 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 trans-...; Region: HisKA; cd00082 266264001988 dimer interface; other site 266264001989 phosphorylation site; other site 266264001990 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 266264001991 ATP binding site; other site 266264001992 Mg2+ binding site; other site 266264001993 G-X-G motif; other site 266264001994 Domain of unknown function (DUF205); Region: DUF205; cl00410 266264001995 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 266264001996 putative deacylase active site; other site 266264001997 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 266264001998 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 of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 266264001999 Int/Topo IB signature motif; other site 266264002000 active site; other site 266264002001 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 266264002002 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 266264002003 DNA binding site; other site 266264002004 active site; other site 266264002005 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...; Region: PBPb; cl11400 266264002006 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 266264002007 Membrane transport protein; Region: Mem_trans; cl09117 266264002008 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 266264002009 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 266264002010 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 266264002011 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 266264002012 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 266264002013 active site; other site 266264002014 metal binding site; other site 266264002015 Membrane transport protein; Region: Mem_trans; cl09117 266264002016 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264002017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264002018 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 266264002019 putative dimerization interface; other site 266264002020 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 266264002021 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 266264002022 S-adenosylmethionine binding site; other site 266264002023 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264002024 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002025 adenylate kinase; Reviewed; Region: adk; PRK00279 266264002026 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 266264002027 AMP-binding site; other site 266264002028 ATP-AMP (Ap5A)-binding site; other site 266264002029 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 266264002030 Ligand binding site; other site 266264002031 oligomer interface; other site 266264002032 Trm112p-like protein; Region: Trm112p; cl01066 266264002033 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 266264002034 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 266264002035 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 266264002036 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 266264002037 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 266264002038 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 266264002039 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 266264002040 generic binding surface II; other site 266264002041 generic binding surface I; other site 266264002042 superoxide dismutase; Provisional; Region: PRK10543 266264002043 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 266264002044 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 266264002045 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264002046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264002047 d-galactonate transporter; Region: 2A0114; TIGR00893 266264002048 putative substrate translocation pore; other site 266264002049 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 266264002050 dinuclear metal binding motif; other site 266264002051 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 266264002052 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...; Region: PA_degradation_oxidoreductase_like; cd06214 266264002053 FAD binding pocket; other site 266264002054 FAD binding motif; other site 266264002055 phosphate binding motif; other site 266264002056 beta-alpha-beta structure motif; other site 266264002057 NAD(p) ribose binding residues; other site 266264002058 NAD binding pocket; other site 266264002059 NAD(P)-pyrophosphate-nicotinamide binding residues; other site 266264002060 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 266264002061 catalytic loop; other site 266264002062 iron binding site; other site 266264002063 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264002064 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 266264002065 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 266264002066 NAD binding site; other site 266264002067 catalytic Zn binding site; other site 266264002068 substrate binding site; other site 266264002069 structural Zn binding site; other site 266264002070 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 266264002071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002072 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; cl09110 266264002073 Citrate transporter; Region: CitMHS; pfam03600 266264002074 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 266264002075 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...; Region: AAA; cd00009 266264002076 Walker A motif; other site 266264002077 ATP binding site; other site 266264002078 Walker B motif; other site 266264002079 arginine finger; other site 266264002080 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264002081 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 266264002082 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 266264002083 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 266264002084 Peptidase M30; Region: Peptidase_M30; pfam10460 266264002085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264002086 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 266264002087 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 266264002088 putative dimer interface; other site 266264002089 [2Fe-2S] cluster binding site; other site 266264002090 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 266264002091 putative dimer interface; other site 266264002092 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 266264002093 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 266264002094 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 266264002095 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 266264002096 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 266264002097 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 266264002098 catalytic loop; other site 266264002099 iron binding site; other site 266264002100 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 266264002101 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)...; Region: MopB_Formate-Dh-H; cd02753 266264002102 [4Fe-4S] binding site; other site 266264002103 molybdopterin cofactor binding site; other site 266264002104 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...; Region: MopB_CT_Fdh-Nap-like; cd00508 266264002105 molybdopterin cofactor binding site; other site 266264002106 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 266264002107 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 266264002108 Transglycosylase; Region: Transgly; cl07896 266264002109 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 266264002110 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 266264002111 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; cl09110 266264002112 transmembrane helices; other site 266264002113 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 266264002114 Acetokinase family; Region: Acetate_kinase; cl01029 266264002115 acetate kinase; Reviewed; Region: PRK12440 266264002116 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 266264002117 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 266264002118 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 266264002119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002120 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cl02586 266264002121 RNA/DNA binding site; other site 266264002122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264002123 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 266264002124 TOBE domain; Region: TOBE_2; cl01440 266264002125 TOBE domain; Region: TOBE_2; cl01440 266264002126 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 266264002127 putative active site; other site 266264002128 putative metal binding residues; other site 266264002129 signature motif; other site 266264002130 putative triphosphate binding site; other site 266264002131 dimer interface; other site 266264002132 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264002133 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 266264002134 Walker A/P-loop; other site 266264002135 ATP binding site; other site 266264002136 Q-loop/lid; other site 266264002137 ABC transporter signature motif; other site 266264002138 Walker B; other site 266264002139 D-loop; other site 266264002140 H-loop/switch region; other site 266264002141 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...; Region: TM_PBP2; cd06261 266264002142 dimer interface; other site 266264002143 conserved gate region; other site 266264002144 putative PBP binding loops; other site 266264002145 ABC-ATPase subunit interface; other site 266264002146 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 266264002147 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 266264002148 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 266264002149 active site; other site 266264002150 metal binding site; other site 266264002151 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 266264002152 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 266264002153 Sel1 repeat; Region: Sel1; cl02723 266264002154 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 266264002155 Fimbrial Usher protein; Region: Usher; pfam00577 266264002156 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 266264002157 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 266264002158 Fimbrial protein; Region: Fimbrial; cl01416 266264002159 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl01450 266264002160 Protein of unknown function (DUF330); Region: DUF330; cl01135 266264002161 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 266264002162 mce related protein; Region: MCE; pfam02470 266264002163 mce related protein; Region: MCE; pfam02470 266264002164 Paraquat-inducible protein A; Region: PqiA; pfam04403 266264002165 Paraquat-inducible protein A; Region: PqiA; pfam04403 266264002166 Domain of unknown function DUF20; Region: UPF0118; cl00465 266264002167 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 266264002168 HPP family; Region: HPP; pfam04982 266264002169 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 266264002170 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 266264002171 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 266264002172 Cl- selectivity filter; other site 266264002173 Cl- binding residues; other site 266264002174 pore gating glutamate residue; other site 266264002175 dimer interface; other site 266264002176 FOG: CBS domain [General function prediction only]; Region: COG0517 266264002177 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 266264002178 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 266264002179 Amidinotransferase; Region: Amidinotransf; cl12043 266264002180 ornithine cyclodeaminase; Validated; Region: PRK07589 266264002181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002182 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 266264002183 DNA binding residues; other site 266264002184 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 266264002185 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 266264002186 active site; other site 266264002187 phosphorylation site; other site 266264002188 intermolecular recognition site; other site 266264002189 dimerization interface; other site 266264002190 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...; Region: AAA; cd00009 266264002191 Walker A motif; other site 266264002192 ATP binding site; other site 266264002193 Walker B motif; other site 266264002194 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264002195 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 266264002196 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 trans...; Region: HisKA; cd00082 266264002197 dimer interface; other site 266264002198 phosphorylation site; other site 266264002199 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 266264002200 ATP binding site; other site 266264002201 Mg2+ binding site; other site 266264002202 G-X-G motif; other site 266264002203 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 266264002204 putative sensor protein; Provisional; Region: PRK09776 266264002205 MASE1; Region: MASE1; cl01367 266264002206 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 266264002207 putative active site; other site 266264002208 heme pocket; other site 266264002209 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 266264002210 putative active site; other site 266264002211 heme pocket; other site 266264002212 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 266264002213 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264002214 metal binding site; other site 266264002215 active site; other site 266264002216 I-site; other site 266264002217 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 266264002218 Cytochrome c; Region: Cytochrom_C; cl11414 266264002219 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 266264002220 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 266264002221 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 266264002222 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 266264002223 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 266264002224 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 266264002225 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 266264002226 anti-sigma factor, TIGR02949 family; Region: anti_SigH_actin 266264002227 RNA polymerase sigma factor; Provisional; Region: PRK12533 266264002228 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264002229 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 266264002230 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 266264002231 active site; other site 266264002232 metal binding site; other site 266264002233 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 266264002234 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 266264002235 MMPL family; Region: MMPL; cl12044 266264002236 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 266264002237 MASE1; Region: MASE1; cl01367 266264002238 PAS fold; Region: PAS_3; pfam08447 266264002239 Esterase/lipase [General function prediction only]; Region: COG1647 266264002240 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 266264002241 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 266264002242 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 266264002243 active site; other site 266264002244 nucleophile elbow; other site 266264002245 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 266264002246 Surface antigen; Region: Bac_surface_Ag; cl03097 266264002247 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 266264002248 Permease family; Region: Xan_ur_permease; cl00967 266264002249 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 266264002250 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 266264002251 active site; other site 266264002252 catalytic residues; other site 266264002253 metal binding site; other site 266264002254 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 266264002255 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 266264002256 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264002257 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 266264002258 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 266264002259 carboxyltransferase (CT) interaction site; other site 266264002260 biotinylation site; other site 266264002261 3-methylcrotonyl-CoA carboxylase; Region: PLN02820 266264002262 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264002263 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264002264 AMP-binding domain protein; Validated; Region: PRK08315 266264002265 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264002266 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264002267 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264002268 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 266264002269 active site; other site 266264002270 phosphorylation site; other site 266264002271 intermolecular recognition site; other site 266264002272 dimerization interface; other site 266264002273 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...; Region: LuxR_C_like; cd06170 266264002274 DNA binding residues; other site 266264002275 dimerization interface; other site 266264002276 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 266264002277 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 266264002278 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 266264002279 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43,...; Region: PL2_Passenger_AT; cd01344 266264002280 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 266264002281 Autotransporter beta-domain; Region: Autotransporter; cl02365 266264002282 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...; Region: cpn10; cd00320 266264002283 oligomerisation interface; other site 266264002284 mobile loop; other site 266264002285 roof hairpin; other site 266264002286 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 266264002287 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 266264002288 ring oligomerisation interface; other site 266264002289 ATP/Mg binding site; other site 266264002290 stacking interactions; other site 266264002291 hinge regions; other site 266264002292 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 266264002293 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 266264002294 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...; Region: AAA; cd00009 266264002295 Walker A motif; other site 266264002296 ATP binding site; other site 266264002297 Walker B motif; other site 266264002298 arginine finger; other site 266264002299 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...; Region: AAA; cd00009 266264002300 Walker A motif; other site 266264002301 ATP binding site; other site 266264002302 Walker B motif; other site 266264002303 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 266264002304 Protein of unknown function (DUF796); Region: DUF796; cl01226 266264002305 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 266264002306 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 266264002307 ligand binding site; other site 266264002308 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 266264002309 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 266264002310 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 266264002311 Protein of unknown function (DUF877); Region: DUF877; pfam05943 266264002312 Protein of unknown function (DUF770); Region: DUF770; cl01402 266264002313 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 266264002314 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 266264002315 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 266264002316 phospholipase D; Region: PLN02352 266264002317 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 266264002318 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264002319 Active site; other site 266264002320 signature motif; other site 266264002321 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 266264002322 Sel1 repeat; Region: Sel1; cl02723 266264002323 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 266264002324 Sel1 repeat; Region: Sel1; cl02723 266264002325 Uncharacterized conserved protein [Function unknown]; Region: COG4104 266264002326 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 266264002327 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 266264002328 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 266264002329 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 266264002330 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 266264002331 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 266264002332 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521; cl01405 266264002333 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 266264002334 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 266264002335 putative active site; other site 266264002336 putative metal binding site; other site 266264002337 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264002338 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264002339 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 266264002340 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...; Region: VirB11-like_ATPase; cd01130 266264002341 ATP binding site; other site 266264002342 Walker A motif; other site 266264002343 hexamer interface; other site 266264002344 Walker B motif; other site 266264002345 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 266264002346 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 266264002347 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264002348 TadE-like protein; Region: TadE; pfam07811 266264002349 TadE-like protein; Region: TadE; pfam07811 266264002350 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 266264002351 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 266264002352 SAF domain; Region: SAF; cl00555 266264002353 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...; Region: AAA; cd00009 266264002354 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 266264002355 Walker A motif; other site 266264002356 ATP binding site; other site 266264002357 Walker B motif; other site 266264002358 arginine finger; other site 266264002359 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 266264002360 Flp/Fap pilin component; Region: Flp_Fap; cl01585 266264002361 Flp/Fap pilin component; Region: Flp_Fap; cl01585 266264002362 Flp/Fap pilin component; Region: Flp_Fap; cl01585 266264002363 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 266264002364 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 266264002365 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 266264002366 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 266264002367 Ligand binding site; other site 266264002368 Putative Catalytic site; other site 266264002369 DXD motif; other site 266264002370 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 266264002371 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 266264002372 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...; Region: AAA; cd00009 266264002373 Walker A motif; other site 266264002374 ATP binding site; other site 266264002375 Walker B motif; other site 266264002376 arginine finger; other site 266264002377 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264002378 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264002379 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 266264002380 dimerization interface; other site 266264002381 substrate binding pocket; other site 266264002382 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264002383 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264002384 putative substrate translocation pore; other site 266264002385 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 266264002386 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 266264002387 Domain of unknown function (DUF477); Region: DUF477; cl01535 266264002388 Domain of unknown function (DUF477); Region: DUF477; cl01535 266264002389 LemA family; Region: LemA; cl00742 266264002390 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 266264002391 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 266264002392 dimer interface; other site 266264002393 active site; other site 266264002394 catalytic residue; other site 266264002395 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 266264002396 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 266264002397 inhibitor-cofactor binding pocket; other site 266264002398 pyridoxal 5'-phosphate binding site; other site 266264002399 catalytic residue; other site 266264002400 Rubredoxin [Energy production and conversion]; Region: COG1773 266264002401 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...; Region: rubredoxin; cd00730 266264002402 iron binding site; other site 266264002403 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 266264002404 active site; other site 266264002405 phosphorylation site; other site 266264002406 intermolecular recognition site; other site 266264002407 dimerization interface; other site 266264002408 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 266264002409 active site; other site 266264002410 phosphorylation site; other site 266264002411 intermolecular recognition site; other site 266264002412 dimerization interface; other site 266264002413 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 266264002414 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 266264002415 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264002416 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 266264002417 putative binding surface; other site 266264002418 active site; other site 266264002419 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 266264002420 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 266264002421 putative binding surface; other site 266264002422 active site; other site 266264002423 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 266264002424 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 266264002425 ATP binding site; other site 266264002426 Mg2+ binding site; other site 266264002427 G-X-G motif; other site 266264002428 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 266264002429 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 266264002430 active site; other site 266264002431 phosphorylation site; other site 266264002432 intermolecular recognition site; other site 266264002433 dimerization interface; other site 266264002434 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264002435 d-galactonate transporter; Region: 2A0114; TIGR00893 266264002436 putative substrate translocation pore; other site 266264002437 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 266264002438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002439 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 266264002440 NAD(P) binding site; other site 266264002441 catalytic residues; other site 266264002442 catalytic residues; other site 266264002443 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 266264002444 dimer interface; other site 266264002445 substrate binding site; other site 266264002446 metal binding sites; other site 266264002447 FemAB family; Region: FemAB; cl11444 266264002448 NAD synthetase; Reviewed; Region: nadE; PRK02628 266264002449 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 266264002450 multimer interface; other site 266264002451 active site; other site 266264002452 catalytic triad; other site 266264002453 protein interface 1; other site 266264002454 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...; Region: NAD_synthase; cd00553 266264002455 homodimer interface; other site 266264002456 NAD binding pocket; other site 266264002457 ATP binding pocket; other site 266264002458 Mg binding site; other site 266264002459 active-site loop; other site 266264002460 Nitrogen regulatory protein P-II; Region: P-II; cl00412 266264002461 Predicted membrane protein [Function unknown]; Region: COG2860 266264002462 UPF0126 domain; Region: UPF0126; pfam03458 266264002463 UPF0126 domain; Region: UPF0126; pfam03458 266264002464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 266264002465 Smr domain; Region: Smr; cl02619 266264002466 thioredoxin reductase; Provisional; Region: PRK10262 266264002467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002468 DNA translocase FtsK; Provisional; Region: PRK10263 266264002469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264002470 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 266264002471 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 266264002472 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264002473 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...; Region: PBPb; cd00134 266264002474 substrate binding pocket; other site 266264002475 membrane-bound complex binding site; other site 266264002476 hinge residues; other site 266264002477 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 266264002478 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...; Region: TM_PBP2; cd06261 266264002479 dimer interface; other site 266264002480 conserved gate region; other site 266264002481 putative PBP binding loops; other site 266264002482 ABC-ATPase subunit interface; other site 266264002483 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...; Region: TM_PBP2; cd06261 266264002484 dimer interface; other site 266264002485 conserved gate region; other site 266264002486 putative PBP binding loops; other site 266264002487 ABC-ATPase subunit interface; other site 266264002488 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 266264002489 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...; Region: ABC_HisP_GlnQ_permeases; cd03262 266264002490 Walker A/P-loop; other site 266264002491 ATP binding site; other site 266264002492 Q-loop/lid; other site 266264002493 ABC transporter signature motif; other site 266264002494 Walker B; other site 266264002495 D-loop; other site 266264002496 H-loop/switch region; other site 266264002497 recombination factor protein RarA; Reviewed; Region: PRK13342 266264002498 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...; Region: AAA; cd00009 266264002499 Walker A motif; other site 266264002500 ATP binding site; other site 266264002501 Walker B motif; other site 266264002502 arginine finger; other site 266264002503 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 266264002504 seryl-tRNA synthetase; Provisional; Region: PRK05431 266264002505 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 266264002506 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...; Region: SerRS_core; cd00770 266264002507 dimer interface; other site 266264002508 active site; other site 266264002509 motif 1; other site 266264002510 motif 2; other site 266264002511 motif 3; other site 266264002512 Pilin (bacterial filament); Region: Pilin; pfam00114 266264002513 Domain of unknown function DUF21; Region: DUF21; pfam01595 266264002514 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 266264002515 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 266264002516 Transporter associated domain; Region: CorC_HlyC; pfam03471 266264002517 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 266264002518 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264002519 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 266264002520 putative dimerization interface; other site 266264002521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002522 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 266264002523 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...; Region: PBPb; cd00134 266264002524 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264002525 substrate binding pocket; other site 266264002526 membrane-bound complex binding site; other site 266264002527 hinge residues; other site 266264002528 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 266264002529 cyanophycin synthetase; Provisional; Region: PRK14016 266264002530 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264002531 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 266264002532 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 266264002533 cyanophycin synthetase; Provisional; Region: PRK14016 266264002534 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264002535 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 266264002536 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 266264002537 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 266264002538 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 266264002539 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 266264002540 Walker A/P-loop; other site 266264002541 ATP binding site; other site 266264002542 Q-loop/lid; other site 266264002543 ABC transporter signature motif; other site 266264002544 Walker B; other site 266264002545 D-loop; other site 266264002546 H-loop/switch region; other site 266264002547 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 266264002548 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 266264002549 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 266264002550 motif II; other site 266264002551 3-demethylubiquinone-9 3-methyltransferase; Provisional; Region: PRK05134 266264002552 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 266264002553 S-adenosylmethionine binding site; other site 266264002554 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 266264002555 ligand binding site; other site 266264002556 DNA gyrase subunit A; Validated; Region: PRK05560 266264002557 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...; Region: TOP4c; cd00187 266264002558 CAP-like domain; other site 266264002559 Active site; other site 266264002560 primary dimer interface; other site 266264002561 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 266264002562 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 266264002563 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 266264002564 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 266264002565 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 266264002566 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 266264002567 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 266264002568 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...; Region: PSAT_like; cd00611 266264002569 homodimer interface; other site 266264002570 substrate-cofactor binding pocket; other site 266264002571 pyridoxal 5'-phosphate binding site; other site 266264002572 catalytic residue; other site 266264002573 Chorismate mutase type II; Region: CM_2; cl00693 266264002574 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 266264002575 Prephenate dehydratase; Region: PDT; pfam00800 266264002576 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 266264002577 putative L-Phe binding site; other site 266264002578 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 266264002579 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 266264002580 pyridoxal 5'-phosphate binding site; other site 266264002581 homodimer interface; other site 266264002582 catalytic residue; other site 266264002583 Prephenate dehydrogenase; Region: PDH; pfam02153 266264002584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002585 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 266264002586 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 266264002587 hinge; other site 266264002588 active site; other site 266264002589 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 266264002590 cytidylate kinase; Provisional; Region: cmk; PRK00023 266264002591 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 266264002592 CMP-binding site; other site 266264002593 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 266264002594 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...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 266264002595 RNA binding site; other site 266264002596 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...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 266264002597 RNA binding site; other site 266264002598 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 266264002599 RNA binding site; other site 266264002600 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 266264002601 RNA binding site; other site 266264002602 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 266264002603 RNA binding site; other site 266264002604 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 266264002605 RNA binding site; other site 266264002606 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 higher...; Region: HU_IHF; cd00591 266264002607 IHF dimer interface; other site 266264002608 IHF - DNA interface; other site 266264002609 tetratricopeptide repeat protein; Provisional; Region: PRK11788 266264002610 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 266264002611 binding surface; other site 266264002612 TPR motif; other site 266264002613 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 266264002614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002615 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 266264002616 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 266264002617 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 266264002618 putative ribose interaction site; other site 266264002619 putative ADP binding site; other site 266264002620 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 266264002621 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 266264002622 Permease family; Region: Xan_ur_permease; cl00967 266264002623 cysteine synthases; Region: cysKM; TIGR01136 266264002624 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 266264002625 dimer interface; other site 266264002626 pyridoxal 5'-phosphate binding site; other site 266264002627 catalytic residue; other site 266264002628 lytic murein transglycosylase; Region: MltB_2; TIGR02283 266264002629 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 266264002630 N-acetyl-D-glucosamine binding site; other site 266264002631 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 266264002632 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 266264002633 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 266264002634 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. ...; Region: ABC_MetN_methionine_transporter; cd03258 266264002635 Walker A/P-loop; other site 266264002636 ATP binding site; other site 266264002637 Q-loop/lid; other site 266264002638 ABC transporter signature motif; other site 266264002639 Walker B; other site 266264002640 D-loop; other site 266264002641 H-loop/switch region; other site 266264002642 NIL domain; Region: NIL; pfam09383 266264002643 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...; Region: TM_PBP2; cd06261 266264002644 ABC-ATPase subunit interface; other site 266264002645 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...; Region: PBPb; cl11400 266264002646 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 266264002647 Ligand binding site; other site 266264002648 etfA (electron transfer flavoprotein alpha subunit); Provisional; Region: PLN00022 266264002649 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 266264002650 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 266264002651 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 266264002652 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264002653 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264002654 active site; other site 266264002655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002656 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 266264002657 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 266264002658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264002659 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 266264002660 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 266264002661 FeS/SAM binding site; other site 266264002662 transcriptional activator TtdR; Provisional; Region: PRK09801 266264002663 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 266264002664 putative effector binding pocket; other site 266264002665 dimerization interface; other site 266264002666 TM2 domain; Region: TM2; cl00984 266264002667 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 266264002668 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 266264002669 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 266264002670 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 266264002671 RimM N-terminal domain; Region: RimM; pfam01782 266264002672 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...; Region: PRCH; cl09959 266264002673 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 266264002674 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 266264002675 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 266264002676 putative active site; other site 266264002677 putative CoA binding site; other site 266264002678 nudix motif; other site 266264002679 metal binding site; other site 266264002680 rhodanese superfamily protein; Provisional; Region: PRK05320 266264002681 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 266264002682 active site residue; other site 266264002683 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 266264002684 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 266264002685 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 266264002686 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...; Region: DnaE_OBF; cd04485 266264002687 generic binding surface II; other site 266264002688 generic binding surface I; other site 266264002689 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 266264002690 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 266264002691 putative ADP-binding pocket; other site 266264002692 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 266264002693 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 266264002694 putative metal binding site; other site 266264002695 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 266264002696 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 266264002697 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 266264002698 Walker A/P-loop; other site 266264002699 ATP binding site; other site 266264002700 Q-loop/lid; other site 266264002701 ABC transporter signature motif; other site 266264002702 Walker B; other site 266264002703 D-loop; other site 266264002704 H-loop/switch region; other site 266264002705 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 266264002706 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264002707 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...; Region: metallo-dependent_hydrolases; cl00281 266264002708 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...; Region: metallo-dependent_hydrolases; cl00281 266264002709 active site; other site 266264002710 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 266264002711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264002712 Walker A/P-loop; other site 266264002713 ATP binding site; other site 266264002714 Q-loop/lid; other site 266264002715 ABC transporter signature motif; other site 266264002716 Walker B; other site 266264002717 D-loop; other site 266264002718 H-loop/switch region; other site 266264002719 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 266264002720 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 266264002721 Walker A/P-loop; other site 266264002722 ATP binding site; other site 266264002723 Q-loop/lid; other site 266264002724 ABC transporter signature motif; other site 266264002725 Walker B; other site 266264002726 D-loop; other site 266264002727 H-loop/switch region; other site 266264002728 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264002729 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 266264002730 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 266264002731 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 266264002732 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 266264002733 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 266264002734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264002735 DNA-binding site; other site 266264002736 UTRA domain; Region: UTRA; cl06649 266264002737 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...; Region: metallo-dependent_hydrolases; cl00281 266264002738 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 266264002739 active site; other site 266264002740 Protein of unknown function (DUF1045); Region: DUF1045; cl05676 266264002741 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 266264002742 Active site; other site 266264002743 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264002744 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 266264002745 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...; Region: TM_PBP2; cd06261 266264002746 dimer interface; other site 266264002747 conserved gate region; other site 266264002748 putative PBP binding loops; other site 266264002749 ABC-ATPase subunit interface; other site 266264002750 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 266264002751 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...; Region: PBPb; cl11400 266264002752 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 266264002753 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 266264002754 Walker A/P-loop; other site 266264002755 ATP binding site; other site 266264002756 Q-loop/lid; other site 266264002757 ABC transporter signature motif; other site 266264002758 Walker B; other site 266264002759 D-loop; other site 266264002760 H-loop/switch region; other site 266264002761 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264002762 d-galactonate transporter; Region: 2A0114; TIGR00893 266264002763 putative substrate translocation pore; other site 266264002764 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264002765 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264002766 putative substrate translocation pore; other site 266264002767 ribonuclease G; Provisional; Region: PRK11712 266264002768 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 266264002769 homodimer interface; other site 266264002770 oligonucleotide binding site; other site 266264002771 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 266264002772 active site; other site 266264002773 dimer interface; other site 266264002774 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 266264002775 Domain of unknown function DUF143; Region: DUF143; cl00519 266264002776 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 266264002777 active site; other site 266264002778 substrate binding site; other site 266264002779 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: PRK06973 266264002780 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 266264002781 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 266264002782 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 266264002783 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264002784 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 266264002785 Domain of unknown function DUF28; Region: DUF28; cl00361 266264002786 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 266264002787 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...; Region: AAA; cd00009 266264002788 Walker A motif; other site 266264002789 ATP binding site; other site 266264002790 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 266264002791 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264002792 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...; Region: PBPb; cl11400 266264002793 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 266264002794 EamA-like transporter family; Region: EamA; cl01037 266264002795 EamA-like transporter family; Region: EamA; cl01037 266264002796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002797 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 266264002798 active site; other site 266264002799 dimer interfaces; other site 266264002800 catalytic residues; other site 266264002801 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 266264002802 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 266264002803 putative ligand binding site; other site 266264002804 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette...; Region: TM_PBP1_transp_TpRbsC_like; cd06580 266264002805 TM-ABC transporter signature motif; other site 266264002806 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette...; Region: TM_PBP1_transp_TpRbsC_like; cd06580 266264002807 TM-ABC transporter signature motif; other site 266264002808 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 266264002809 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...; Region: ABC_Carb_Monos_I; cd03216 266264002810 Walker A/P-loop; other site 266264002811 ATP binding site; other site 266264002812 Q-loop/lid; other site 266264002813 ABC transporter signature motif; other site 266264002814 Walker B; other site 266264002815 D-loop; other site 266264002816 H-loop/switch region; other site 266264002817 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 266264002818 Pirin-related protein [General function prediction only]; Region: COG1741 266264002819 Cupin domain; Region: Cupin_2; cl09118 266264002820 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 266264002821 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...; Region: TM_PBP2; cd06261 266264002822 dimer interface; other site 266264002823 conserved gate region; other site 266264002824 putative PBP binding loops; other site 266264002825 ABC-ATPase subunit interface; other site 266264002826 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...; Region: PBPb; cl11400 266264002827 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 266264002828 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...; Region: TM_PBP2; cd06261 266264002829 dimer interface; other site 266264002830 conserved gate region; other site 266264002831 ABC-ATPase subunit interface; other site 266264002832 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 266264002833 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family...; Region: ABC_OpuCA_Osmoprotection; cd03295 266264002834 Walker A/P-loop; other site 266264002835 ATP binding site; other site 266264002836 Q-loop/lid; other site 266264002837 ABC transporter signature motif; other site 266264002838 Walker B; other site 266264002839 D-loop; other site 266264002840 H-loop/switch region; other site 266264002841 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 266264002842 FOG: CBS domain [General function prediction only]; Region: COG0517 266264002843 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 266264002844 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 266264002845 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 266264002846 active site residues; other site 266264002847 dimer interface; other site 266264002848 NfeD-like; Region: NfeD; cl00686 266264002849 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264002850 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264002851 putative substrate translocation pore; other site 266264002852 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 266264002853 intersubunit interface; other site 266264002854 active site; other site 266264002855 Zn2+ binding site; other site 266264002856 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 266264002857 active site 1; other site 266264002858 dimer interface; other site 266264002859 hexamer interface; other site 266264002860 active site 2; other site 266264002861 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 266264002862 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 266264002863 tetramer interface; other site 266264002864 pyridoxal 5'-phosphate binding site; other site 266264002865 catalytic residue; other site 266264002866 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...; Region: Nudix_Hydrolase; cl00447 266264002867 nudix motif; other site 266264002868 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 two...; Region: SirA_YedF_YeeD; cd00291 266264002869 CPxP motif; other site 266264002870 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 266264002871 YaeQ protein; Region: YaeQ; cl01913 266264002872 YceI-like domain; Region: YceI; cl01001 266264002873 MAPEG family; Region: MAPEG; cl09190 266264002874 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 266264002875 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 266264002876 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 266264002877 active site; other site 266264002878 HIGH motif; other site 266264002879 nucleotide binding site; other site 266264002880 catalytic core domain of non-descriminating glutamyl-tRNA and glutaminyl-tRNA synthetase; Region: Gln_GluRS_non_core; cd00807 266264002881 KMSKS motif; other site 266264002882 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 266264002883 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264002884 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 266264002885 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 266264002886 hypothetical protein; Provisional; Region: PRK10281 266264002887 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 266264002888 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 266264002889 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...; Region: PBPb; cl11400 266264002890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264002891 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 266264002892 dimerization interface; other site 266264002893 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 266264002894 Tripartite tricarboxylate transporter TctB family; Region: DUF1468; pfam07331 266264002895 potassium/proton antiporter; Reviewed; Region: PRK05326 266264002896 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 266264002897 Transporter associated domain; Region: CorC_HlyC; pfam03471 266264002898 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...; Region: PBPb; cl11400 266264002899 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 266264002900 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264002901 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 266264002902 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...; Region: AlaRS_core; cd00673 266264002903 motif 1; other site 266264002904 active site; other site 266264002905 motif 2; other site 266264002906 motif 3; other site 266264002907 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 266264002908 DHHA1 domain; Region: DHHA1; pfam02272 266264002909 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 266264002910 dimer interface; other site 266264002911 NADP binding site; other site 266264002912 catalytic residues; other site 266264002913 Transcriptional regulators [Transcription]; Region: FadR; COG2186 266264002914 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264002915 DNA-binding site; other site 266264002916 FCD domain; Region: FCD; cl11656 266264002917 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 266264002918 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of...; Region: D-glucarate_dehydratase; cd03323 266264002919 active site; other site 266264002920 tetramer interface; other site 266264002921 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...; Region: PBPb; cl11400 266264002922 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 266264002923 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 266264002924 N-terminal plug; other site 266264002925 ligand-binding site; other site 266264002926 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 266264002927 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 266264002928 active site; other site 266264002929 substrate binding site; other site 266264002930 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 266264002931 FMN binding site; other site 266264002932 putative catalytic residues; other site 266264002933 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264002934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264002935 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 266264002936 substrate binding site; other site 266264002937 oxyanion hole (OAH) forming residues; other site 266264002938 trimer interface; other site 266264002939 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 266264002940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264002941 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 266264002942 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...; Region: PBPb; cl11400 266264002943 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 266264002944 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264002945 active site; other site 266264002946 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264002947 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264002948 active site; other site 266264002949 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 266264002950 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 266264002951 FeS/SAM binding site; other site 266264002952 HemN C-terminal region; Region: HemN_C; pfam06969 266264002953 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 Ham1...; Region: HAM1; cd00515 266264002954 active site; other site 266264002955 dimerization interface; other site 266264002956 ribonuclease PH; Reviewed; Region: rph; PRK00173 266264002957 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 266264002958 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 266264002959 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 266264002960 Active site; other site 266264002961 Protein kinase domain; Region: Pkinase; pfam00069 266264002962 Catalytic domain of Protein Kinases; Region: PKc; cd00180 266264002963 active site; other site 266264002964 ATP binding site; other site 266264002965 substrate binding site; other site 266264002966 activation loop (A-loop); other site 266264002967 hypothetical protein; Provisional; Region: PRK11820 266264002968 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 266264002969 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 266264002970 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...; Region: GMPK; cd00071 266264002971 catalytic site; other site 266264002972 G-X2-G-X-G-K; other site 266264002973 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl00765 266264002974 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 266264002975 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 266264002976 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 266264002977 synthetase active site; other site 266264002978 NTP binding site; other site 266264002979 metal binding site; other site 266264002980 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...; Region: TGS_RelA_SpoT; cd01668 266264002981 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 266264002982 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 266264002983 domain; Region: GreA_GreB_N; pfam03449 266264002984 C-term; Region: GreA_GreB; pfam01272 266264002985 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 266264002986 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl01426 266264002987 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 266264002988 putative active site; other site 266264002989 heme pocket; other site 266264002990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264002991 metal binding site; other site 266264002992 active site; other site 266264002993 I-site; other site 266264002994 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 266264002995 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264002996 DNA-binding site; other site 266264002997 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 266264002998 pyridoxal 5'-phosphate binding site; other site 266264002999 homodimer interface; other site 266264003000 catalytic residue; other site 266264003001 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 266264003002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003003 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 266264003004 Protein of unknown function (DUF342); Region: DUF342; pfam03961 266264003005 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 266264003006 active site; other site 266264003007 phosphorylation site; other site 266264003008 intermolecular recognition site; other site 266264003009 dimerization interface; other site 266264003010 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-1,7...; Region: FBPase; cd00354 266264003011 AMP binding site; other site 266264003012 metal binding site; other site 266264003013 active site; other site 266264003014 aminopeptidase N; Provisional; Region: pepN; PRK14015 266264003015 Peptidase family M1; Region: Peptidase_M1; pfam01433 266264003016 malic enzyme; Reviewed; Region: PRK12862 266264003017 Malic enzyme, N-terminal domain; Region: malic; pfam00390 266264003018 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 266264003019 putative NAD(P) binding site; other site 266264003020 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 266264003021 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...; Region: gram_neg_porins; cd00342 266264003022 trimer interface; other site 266264003023 eyelet of channel; other site 266264003024 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 266264003025 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 266264003026 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 266264003027 Permease family; Region: Xan_ur_permease; cl00967 266264003028 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264003029 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264003030 DNA-binding site; other site 266264003031 FCD domain; Region: FCD; cl11656 266264003032 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 266264003033 active site; other site 266264003034 homotetramer interface; other site 266264003035 Predicted membrane protein [Function unknown]; Region: COG3748 266264003036 Protein of unknown function (DUF989); Region: DUF989; pfam06181 266264003037 Cytochrome c; Region: Cytochrom_C; cl11414 266264003038 Predicted membrane protein [Function unknown]; Region: COG2119 266264003039 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 266264003040 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 266264003041 Fatty acid desaturase; Region: FA_desaturase; pfam00487 266264003042 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 266264003043 putative di-iron ligands; other site 266264003044 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 266264003045 chlorohydrolase; Validated; Region: PRK06687 266264003046 active site; other site 266264003047 adenosine deaminase; Provisional; Region: PRK09358 266264003048 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 266264003049 active site; other site 266264003050 purine riboside binding site; other site 266264003051 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 266264003052 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 266264003053 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 266264003054 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 266264003055 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 266264003056 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 266264003057 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 266264003058 FAD binding domain; Region: FAD_binding_4; cl10516 266264003059 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 266264003060 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264003061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264003062 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 266264003063 putative substrate binding pocket; other site 266264003064 putative dimerization interface; other site 266264003065 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 266264003066 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 266264003067 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264003068 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 266264003069 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 266264003070 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...; Region: Trunc_globin; cd00454 266264003071 apolar tunnel; other site 266264003072 heme binding site; other site 266264003073 dimerization interface; other site 266264003074 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 266264003075 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264003076 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264003077 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 266264003078 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 266264003079 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...; Region: GT1_like_2; cd03814 266264003080 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase; Region: PLN02871 266264003081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 266264003082 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 266264003083 putative active site; other site 266264003084 putative metal binding site; other site 266264003085 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 266264003086 RDD family; Region: RDD; cl00746 266264003087 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 266264003088 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 266264003089 RNA polymerase factor sigma-70; Validated; Region: PRK09047 266264003090 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...; Region: Sigma70_r4; cd06171 266264003091 DNA binding residues; other site 266264003092 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 266264003093 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 266264003094 PYR/PP interface; other site 266264003095 dimer interface; other site 266264003096 TPP binding site; other site 266264003097 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 266264003098 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 266264003099 TPP-binding site; other site 266264003100 dimer interface; other site 266264003101 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 266264003102 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 266264003103 putative valine binding site; other site 266264003104 dimer interface; other site 266264003105 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 266264003106 ketol-acid reductoisomerase; Provisional; Region: PRK05479 266264003107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003108 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 266264003109 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 266264003110 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 266264003111 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 266264003112 Putative phospholipid-binding domain; Region: BON; cl02771 266264003113 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 266264003114 putative peptidoglycan binding site; other site 266264003115 2-isopropylmalate synthase; Validated; Region: PRK00915 266264003116 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 266264003117 active site; other site 266264003118 catalytic residues; other site 266264003119 metal binding site; other site 266264003120 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 266264003121 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264003122 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 266264003123 putative ligand binding site; other site 266264003124 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...; Region: Ribosomal_S15p_S13e; cd00353 266264003125 16S/18S rRNA binding site; other site 266264003126 S13e-L30e interaction site; other site 266264003127 25S rRNA binding site; other site 266264003128 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 266264003129 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 266264003130 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 266264003131 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 266264003132 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 266264003133 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 266264003134 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 266264003135 putative nucleic acid binding region; other site 266264003136 G-X-X-G motif; other site 266264003137 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 266264003138 RNA binding site; other site 266264003139 domain interface; other site 266264003140 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 266264003141 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 266264003142 NAD(P) binding site; other site 266264003143 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 266264003144 substrate binding site; other site 266264003145 dimer interface; other site 266264003146 catalytic triad; other site 266264003147 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 266264003148 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 266264003149 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 266264003150 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 266264003151 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 266264003152 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...; Region: TRX_Fd_NuoE; cd03064 266264003153 putative dimer interface; other site 266264003154 [2Fe-2S] cluster binding site; other site 266264003155 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 266264003156 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 266264003157 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 266264003158 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 266264003159 NADH dehydrogenase subunit G; Validated; Region: PRK09129 266264003160 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 266264003161 catalytic loop; other site 266264003162 iron binding site; other site 266264003163 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 266264003164 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...; Region: MopB_NDH-1_NuoG2; cd02772 266264003165 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-.; Region: MopB_CT; cd02775 266264003166 NADH dehydrogenase; Region: NADHdh; cl00469 266264003167 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 266264003168 4Fe-4S binding domain; Region: Fer4; pfam00037 266264003169 NADH-ubiquinone/plastoquinone oxidoreductase chain 6; Region: Oxidored_q3; cl00676 266264003170 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 266264003171 NADH dehydrogenase subunit L; Reviewed; Region: PRK06590 266264003172 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 266264003173 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 266264003174 NADH dehydrogenase subunit M; Reviewed; Region: PRK05846 266264003175 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 266264003176 NADH dehydrogenase subunit N; Provisional; Region: PRK05777 266264003177 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 266264003178 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 266264003179 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 266264003180 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...; Region: ADPRase_NUDT5; cd03424 266264003181 dimer interface; other site 266264003182 ADP-ribose binding site; other site 266264003183 active site; other site 266264003184 nudix motif; other site 266264003185 metal binding site; other site 266264003186 Protein of unknown function (DUF1178); Region: DUF1178; cl02196 266264003187 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264003188 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 266264003189 FAD binding site; other site 266264003190 substrate binding site; other site 266264003191 catalytic base; other site 266264003192 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 266264003193 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264003194 active site; other site 266264003195 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 266264003196 putative active site; other site 266264003197 putative catalytic site; other site 266264003198 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 266264003199 putative active site; other site 266264003200 putative catalytic site; other site 266264003201 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 266264003202 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 266264003203 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 266264003204 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 266264003205 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 266264003206 D-pathway; other site 266264003207 Putative ubiquinol binding site; other site 266264003208 Low-spin heme (heme b) binding site; other site 266264003209 Putative water exit pathway; other site 266264003210 Binuclear center (heme o3/CuB); other site 266264003211 K-pathway; other site 266264003212 Putative proton exit pathway; other site 266264003213 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 266264003214 Subunit I/III interface; other site 266264003215 Subunit III/IV interface; other site 266264003216 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 266264003217 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264003218 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 266264003219 putative ligand binding site; other site 266264003220 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 266264003221 TM-ABC transporter signature motif; other site 266264003222 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 266264003223 TM-ABC transporter signature motif; other site 266264003224 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 266264003225 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 266264003226 Walker A/P-loop; other site 266264003227 ATP binding site; other site 266264003228 Q-loop/lid; other site 266264003229 ABC transporter signature motif; other site 266264003230 Walker B; other site 266264003231 D-loop; other site 266264003232 H-loop/switch region; other site 266264003233 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 266264003234 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 266264003235 Walker A/P-loop; other site 266264003236 ATP binding site; other site 266264003237 Q-loop/lid; other site 266264003238 ABC transporter signature motif; other site 266264003239 Walker B; other site 266264003240 D-loop; other site 266264003241 H-loop/switch region; other site 266264003242 UreD urease accessory protein; Region: UreD; cl00530 266264003243 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 266264003244 alpha-gamma subunit interface; other site 266264003245 beta-gamma subunit interface; other site 266264003246 HupE / UreJ protein; Region: HupE_UreJ; cl01011 266264003247 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...; Region: Urease_beta; cd00407 266264003248 gamma-beta subunit interface; other site 266264003249 alpha-beta subunit interface; other site 266264003250 urease subunit alpha; Reviewed; Region: ureC; PRK13207 266264003251 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 266264003252 subunit interactions; other site 266264003253 active site; other site 266264003254 flap region; other site 266264003255 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 266264003256 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 C...; Region: UreE; cd00571 266264003257 dimer interface; other site 266264003258 catalytic residues; other site 266264003259 UreF; Region: UreF; cl00531 266264003260 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264003261 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 266264003262 non-specific DNA binding site; other site 266264003263 salt bridge; other site 266264003264 sequence-specific DNA binding site; other site 266264003265 glutathione S-transferase; Provisional; Region: PRK13972 266264003266 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...; Region: GST_N_Ure2p_like; cd03048 266264003267 C-terminal domain interface; other site 266264003268 GSH binding site (G-site); other site 266264003269 dimer interface; other site 266264003270 GST_C 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...; Region: GST_C_Ure2p_like; cd03178 266264003271 dimer interface; other site 266264003272 N-terminal domain interface; other site 266264003273 putative substrate binding pocket (H-site); other site 266264003274 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264003275 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 266264003276 FAD binding site; other site 266264003277 substrate binding site; other site 266264003278 catalytic base; other site 266264003279 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 266264003280 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264003281 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 266264003282 substrate binding pocket; other site 266264003283 dimerization interface; other site 266264003284 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 266264003285 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 266264003286 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...; Region: PBPb; cl11400 266264003287 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 266264003288 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 266264003289 putative active site; other site 266264003290 putative substrate binding site; other site 266264003291 ATP binding site; other site 266264003292 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264003293 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 266264003294 substrate binding site; other site 266264003295 oxyanion hole (OAH) forming residues; other site 266264003296 trimer interface; other site 266264003297 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 266264003298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003299 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264003300 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264003301 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 266264003302 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 266264003303 C-terminal domain interface; other site 266264003304 GSH binding site (G-site); other site 266264003305 dimer interface; other site 266264003306 Glutathione S-transferase (GST) family, C-terminal alpha helical 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...; Region: GST_C_family; cd00299 266264003307 N-terminal domain interface; other site 266264003308 dimer interface; other site 266264003309 substrate binding pocket (H-site); other site 266264003310 putative aminotransferase; Validated; Region: PRK09082 266264003311 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 266264003312 pyridoxal 5'-phosphate binding site; other site 266264003313 homodimer interface; other site 266264003314 catalytic residue; other site 266264003315 PIN domain; Region: PIN; cl09128 266264003316 Protein of unknown function (DUF328); Region: DUF328; cl01143 266264003317 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 266264003318 A bacterial subgroup of the Peptidase M14-like domain of Nna-1 (Nervous system Nuclear protein induced by Axotomy), also known as ATP/GTP binding protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP)-like proteins. The Peptidase M14 family of...; Region: M14_Nna1_like_1; cd06234 266264003319 putative active site; other site 266264003320 Zn-binding site; other site 266264003321 N-formylglutamate amidohydrolase; Region: FGase; cl01522 266264003322 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...; Region: PBPb; cl11400 266264003323 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264003324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264003325 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 266264003326 dimerization interface; other site 266264003327 substrate binding pocket; other site 266264003328 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 266264003329 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 266264003330 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 266264003331 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...; Region: AAA; cd00009 266264003332 Walker A motif; other site 266264003333 ATP binding site; other site 266264003334 Walker B motif; other site 266264003335 arginine finger; other site 266264003336 Cytochrome c; Region: Cytochrom_C; cl11414 266264003337 Cytochrome c; Region: Cytochrom_C; cl11414 266264003338 NeuB family; Region: NeuB; cl00496 266264003339 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 266264003340 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 266264003341 S-adenosylmethionine binding site; other site 266264003342 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl00398 266264003343 Predicted amidohydrolase [General function prediction only]; Region: COG0388 266264003344 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 266264003345 putative active site; other site 266264003346 catalytic triad; other site 266264003347 dimer interface; other site 266264003348 Predicted membrane protein [Function unknown]; Region: COG3164 266264003349 hypothetical protein; Provisional; Region: PRK10899 266264003350 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 266264003351 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 266264003352 metal binding triad; other site 266264003353 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 266264003354 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 266264003355 metal binding triad; other site 266264003356 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 266264003357 active site; other site 266264003358 catalytic triad; other site 266264003359 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 266264003360 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...; Region: ABC_RecN; cd03241 266264003361 Walker A/P-loop; other site 266264003362 ATP binding site; other site 266264003363 Q-loop/lid; other site 266264003364 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...; Region: ABC_RecN; cd03241 266264003365 ABC transporter signature motif; other site 266264003366 Walker B; other site 266264003367 ATP binding site; other site 266264003368 D-loop; other site 266264003369 H-loop/switch region; other site 266264003370 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 266264003371 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 266264003372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264003373 HrcA protein C terminal domain; Region: HrcA; pfam01628 266264003374 ferrochelatase; Reviewed; Region: hemH; PRK00035 266264003375 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 266264003376 C-terminal domain interface; other site 266264003377 active site; other site 266264003378 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 266264003379 active site; other site 266264003380 N-terminal domain interface; other site 266264003381 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 266264003382 RNA binding surface; other site 266264003383 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 266264003384 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 266264003385 dimer interface; other site 266264003386 hsp70 (ATPase domain) interactions; other site 266264003387 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 266264003388 catalytic residues; other site 266264003389 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among Gram...; Region: OMPLA; cd00541 266264003390 dimerization interface; other site 266264003391 substrate binding site; other site 266264003392 active site; other site 266264003393 calcium binding site; other site 266264003394 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 266264003395 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 266264003396 putative FMN binding site; other site 266264003397 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 266264003398 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264003399 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 266264003400 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 266264003401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003402 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264003403 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264003404 endonuclease III; Provisional; Region: PRK10702 266264003405 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 266264003406 minor groove reading motif; other site 266264003407 helix-hairpin-helix signature motif; other site 266264003408 substrate binding pocket; other site 266264003409 active site; other site 266264003410 ferredoxin; Provisional; Region: PRK06991 266264003411 Putative Fe-S cluster; Region: FeS; pfam04060 266264003412 4Fe-4S binding domain; Region: Fer4; pfam00037 266264003413 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 266264003414 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264003415 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 266264003416 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 266264003417 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 266264003418 pyridoxal 5'-phosphate binding site; other site 266264003419 homodimer interface; other site 266264003420 catalytic residue; other site 266264003421 excinuclease ABC subunit B; Provisional; Region: PRK05298 266264003422 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 266264003423 ATP binding site; other site 266264003424 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 266264003425 nucleotide binding region; other site 266264003426 ATP-binding site; other site 266264003427 Ultra-violet resistance protein B; Region: UvrB; pfam12344 266264003428 UvrB/uvrC motif; Region: UVR; pfam02151 266264003429 Low molecular weight phosphatase family;; Region: LMWPc; cd00115 266264003430 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 266264003431 Active site; other site 266264003432 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 266264003433 Site-specific recombinase; Region: SpecificRecomb; pfam10136 266264003434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264003435 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 266264003436 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 266264003437 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 266264003438 pyridoxal 5'-phosphate binding pocket; other site 266264003439 catalytic residue; other site 266264003440 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 266264003441 trimerization site; other site 266264003442 active site; other site 266264003443 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 266264003444 co-chaperone HscB; Provisional; Region: hscB; PRK03578 266264003445 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...; Region: DnaJ; cl02542 266264003446 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 266264003447 chaperone protein HscA; Provisional; Region: hscA; PRK05183 266264003448 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 266264003449 catalytic loop; other site 266264003450 iron binding site; other site 266264003451 Protein of unknown function (DUF528); Region: DUF528; cl01123 266264003452 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 266264003453 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-...; Region: LysRS_N; cd04322 266264003454 dimer interface; other site 266264003455 putative anticodon binding site; other site 266264003456 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 266264003457 motif 1; other site 266264003458 active site; other site 266264003459 motif 2; other site 266264003460 motif 3; other site 266264003461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003462 short chain dehydrogenase; Provisional; Region: PRK06924 266264003463 peptide chain release factor 2; Validated; Region: prfB; PRK00578 266264003464 RF-1 domain; Region: RF-1; cl02875 266264003465 RF-1 domain; Region: RF-1; cl02875 266264003466 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 266264003467 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 266264003468 putative peptidoglycan binding site; other site 266264003469 Peptidase family M23; Region: Peptidase_M23; pfam01551 266264003470 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 266264003471 DHH family; Region: DHH; pfam01368 266264003472 DHHA1 domain; Region: DHHA1; pfam02272 266264003473 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl12023 266264003474 Predicted permease; Region: FtsX; cl11418 266264003475 LolC/E family; Region: lolCE; TIGR02212 266264003476 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 266264003477 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 266264003478 Walker A/P-loop; other site 266264003479 ATP binding site; other site 266264003480 Q-loop/lid; other site 266264003481 ABC transporter signature motif; other site 266264003482 Walker B; other site 266264003483 D-loop; other site 266264003484 H-loop/switch region; other site 266264003485 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 266264003486 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 266264003487 active site; other site 266264003488 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 266264003489 Competence protein; Region: Competence; cl00471 266264003490 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264003491 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 266264003492 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...; Region: SIS_RpiR; cd05013 266264003493 putative active site; other site 266264003494 6-phosphogluconate dehydratase; Region: edd; TIGR01196 266264003495 Dehydratase family; Region: ILVD_EDD; cl00340 266264003496 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 266264003497 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 266264003498 ATP-binding site; other site 266264003499 Gluconate-6-phosphate binding site; other site 266264003500 Uncharacterized conserved protein [Function unknown]; Region: COG2308 266264003501 Domain of unknown function (DUF404); Region: DUF404; pfam04169 266264003502 Domain of unknown function (DUF407); Region: DUF407; pfam04174 266264003503 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 266264003504 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 266264003505 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 266264003506 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 266264003507 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 266264003508 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings...; Region: proteasome_beta_bacterial; cd03765 266264003509 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264003510 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 266264003511 CTP synthetase; Validated; Region: pyrG; PRK05380 266264003512 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...; Region: CTGs; cd03113 266264003513 Catalytic site; other site 266264003514 Active site; other site 266264003515 UTP binding site; other site 266264003516 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 266264003517 active site; other site 266264003518 putative oxyanion hole; other site 266264003519 catalytic triad; other site 266264003520 NeuB family; Region: NeuB; cl00496 266264003521 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 266264003522 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 266264003523 phosphopyruvate hydratase; Provisional; Region: eno; PRK00077 266264003524 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 266264003525 dimer interface; other site 266264003526 metal binding site; other site 266264003527 substrate binding pocket; other site 266264003528 Septum formation initiator; Region: DivIC; cl11433 266264003529 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 266264003530 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 266264003531 dimerization interface; other site 266264003532 domain crossover interface; other site 266264003533 redox-dependent activation switch; other site 266264003534 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 266264003535 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 266264003536 trimer interface; other site 266264003537 putative metal binding site; other site 266264003538 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 266264003539 dinuclear metal binding motif; other site 266264003540 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 266264003541 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264003542 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264003543 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 266264003544 nucleophilic elbow; other site 266264003545 catalytic triad; other site 266264003546 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 266264003547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003549 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 266264003550 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 266264003551 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 266264003552 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 266264003553 active site; other site 266264003554 putative substrate binding region; other site 266264003555 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 266264003556 S-adenosylmethionine binding site; other site 266264003557 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 266264003558 dihydrodipicolinate synthase; Region: dapA; TIGR00674 266264003559 dimer interface; other site 266264003560 active site; other site 266264003561 catalytic residue; other site 266264003562 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 266264003563 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 266264003564 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264003565 Uncharacterized conserved protein [Function unknown]; Region: COG2850 266264003566 Cupin superfamily protein; Region: Cupin_4; pfam08007 266264003567 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 266264003568 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 266264003569 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 266264003570 MutS domain I; Region: MutS_I; pfam01624 266264003571 MutS domain II; Region: MutS_II; pfam05188 266264003572 MutS domain III; Region: MutS_III; cl04977 266264003573 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 266264003574 Walker A/P-loop; other site 266264003575 ATP binding site; other site 266264003576 Q-loop/lid; other site 266264003577 ABC transporter signature motif; other site 266264003578 Walker B; other site 266264003579 D-loop; other site 266264003580 H-loop/switch region; other site 266264003581 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 266264003582 YcfA-like protein; Region: YcfA; cl00752 266264003583 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 266264003584 active site; other site 266264003585 dimerization interface; other site 266264003586 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 266264003587 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 266264003588 serine O-acetyltransferase; Region: cysE; TIGR01172 266264003589 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 L...; Region: LbH_SAT; cd03354 266264003590 trimer interface; other site 266264003591 active site; other site 266264003592 substrate binding site; other site 266264003593 CoA binding site; other site 266264003594 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 266264003595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 266264003596 putative active site; other site 266264003597 putative metal binding site; other site 266264003598 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 266264003599 substrate binding site; other site 266264003600 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 266264003601 active site; other site 266264003602 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 266264003603 TPR motif; other site 266264003604 binding surface; other site 266264003605 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 266264003606 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 266264003607 active site; other site 266264003608 HIGH motif; other site 266264003609 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 266264003610 KMSKS motif; other site 266264003611 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 266264003612 tRNA binding surface; other site 266264003613 anticodon binding site; other site 266264003614 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 266264003615 endonuclease III; Region: ENDO3c; smart00478 266264003616 minor groove reading motif; other site 266264003617 helix-hairpin-helix signature motif; other site 266264003618 substrate binding pocket; other site 266264003619 active site; other site 266264003620 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264003621 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 266264003622 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 266264003623 Ligand Binding Site; other site 266264003624 TilS substrate binding domain; Region: TilS; pfam09179 266264003625 B3/4 domain; Region: B3_4; cl11458 266264003626 aspartate kinase; Reviewed; Region: PRK06635 266264003627 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 266264003628 putative nucleotide binding site; other site 266264003629 putative catalytic residues; other site 266264003630 putative Mg ion binding site; other site 266264003631 putative aspartate binding site; other site 266264003632 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 266264003633 putative allosteric regulatory site; other site 266264003634 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 266264003635 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 266264003636 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 266264003637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264003638 metal binding site; other site 266264003639 active site; other site 266264003640 I-site; other site 266264003641 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 266264003642 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; cl09110 266264003643 transmembrane helices; other site 266264003644 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 266264003645 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 266264003646 NAD binding site; other site 266264003647 substrate binding site; other site 266264003648 catalytic Zn binding site; other site 266264003649 tetramer interface; other site 266264003650 structural Zn binding site; other site 266264003651 Surface antigen; Region: Bac_surface_Ag; cl03097 266264003652 Surface antigen; Region: Bac_surface_Ag; cl03097 266264003653 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 266264003654 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264003655 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 266264003656 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 266264003657 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 266264003658 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 266264003659 active site; other site 266264003660 HIGH motif; other site 266264003661 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 266264003662 KMSKS motif; other site 266264003663 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 266264003664 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 266264003665 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 266264003666 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide...; Region: LbH_gamma_CA; cd00710 266264003667 trimer interface; other site 266264003668 active site; other site 266264003669 dihydroorotase; Validated; Region: PRK09060 266264003670 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...; Region: metallo-dependent_hydrolases; cl00281 266264003671 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 266264003672 active site; other site 266264003673 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 266264003674 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 266264003675 N-terminal plug; other site 266264003676 ligand-binding site; other site 266264003677 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 266264003678 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 266264003679 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 266264003680 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 266264003681 N-terminal plug; other site 266264003682 ligand-binding site; other site 266264003683 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 266264003684 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 266264003685 active site; other site 266264003686 pyridoxal 5'-phosphate (PLP) binding site; other site 266264003687 dimer interface; other site 266264003688 catalytic residues; other site 266264003689 substrate binding site; other site 266264003690 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 266264003691 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 266264003692 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 266264003693 IucA / IucC family; Region: IucA_IucC; pfam04183 266264003694 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 266264003695 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 266264003696 IucA / IucC family; Region: IucA_IucC; pfam04183 266264003697 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 266264003698 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264003699 putative substrate translocation pore; other site 266264003700 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 266264003701 IucA / IucC family; Region: IucA_IucC; pfam04183 266264003702 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 266264003703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003704 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 266264003705 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 266264003706 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 266264003707 dimer interface; other site 266264003708 pyridoxal 5'-phosphate binding site; other site 266264003709 catalytic residue; other site 266264003710 Secretin and TonB N terminus short domain; Region: STN; pfam07660 266264003711 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 266264003712 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 266264003713 N-terminal plug; other site 266264003714 ligand-binding site; other site 266264003715 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 266264003716 FecR protein; Region: FecR; pfam04773 266264003717 RNA polymerase sigma factor; Reviewed; Region: PRK12527 266264003718 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264003719 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...; Region: Sigma70_r4; cd06171 266264003720 DNA binding residues; other site 266264003721 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 266264003722 MMPL family; Region: MMPL; cl12044 266264003723 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 266264003724 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 266264003725 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...; Region: PBPb; cd00134 266264003726 substrate binding pocket; other site 266264003727 membrane-bound complex binding site; other site 266264003728 hinge residues; other site 266264003729 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 266264003730 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 266264003731 putative molybdopterin cofactor binding site; other site 266264003732 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: MopB_CT_ydeP; cd02787 266264003733 putative molybdopterin cofactor binding site; other site 266264003734 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 266264003735 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 266264003736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264003737 DNA-binding site; other site 266264003738 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 266264003739 pyridoxal 5'-phosphate binding site; other site 266264003740 homodimer interface; other site 266264003741 catalytic residue; other site 266264003742 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 266264003743 FAD binding domain; Region: FAD_binding_4; cl10516 266264003744 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 266264003745 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264003746 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 266264003747 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 266264003748 Protein of unknown function (DUF962); Region: DUF962; cl01879 266264003749 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264003750 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 266264003751 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 266264003752 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 266264003753 homodimer interface; other site 266264003754 substrate-cofactor binding pocket; other site 266264003755 pyridoxal 5'-phosphate binding site; other site 266264003756 catalytic residue; other site 266264003757 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-...; Region: CBS_pair_12; cd04625 266264003758 FOG: CBS domain [General function prediction only]; Region: COG0517 266264003759 lysophospholipid transporter LplT; Provisional; Region: PRK11195 266264003760 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264003761 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 266264003762 putative acyl-acceptor binding pocket; other site 266264003763 Metaxin-like proteins; a heterogenous group of proteins, predominantly uncharacterized, with similarity to metaxins and GSTs. Metaxin 1 is a component of a preprotein import complex of the mitochondrial outer membrane. It extends to the cytosol and is...; Region: GST_N_Metaxin_like; cd03080 266264003764 putative C-terminal domain interface; other site 266264003765 putative GSH binding site; other site 266264003766 putative dimer interface; other site 266264003767 GST_C family, Metaxin subfamily; composed of metaxins and related proteins. Metaxin 1 is a component of a preprotein import complex of the mitochondrial outer membrane. It extends to the cytosol and is anchored to the mitochondrial membrane through its...; Region: GST_C_Metaxin; cd03193 266264003768 putative dimer interface; other site 266264003769 putative N-terminal domain interface; other site 266264003770 putative substrate binding pocket (H-site); other site 266264003771 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 266264003772 Tetramer interface; other site 266264003773 Active site; other site 266264003774 FMN-binding site; other site 266264003775 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128; cl11521 266264003776 FAD dependent oxidoreductase; Region: DAO; pfam01266 266264003777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003778 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264003779 DNA-binding site; other site 266264003780 FCD domain; Region: FCD; cl11656 266264003781 PilZ domain; Region: PilZ; cl01260 266264003782 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 266264003783 Cytochrome c; Region: Cytochrom_C; cl11414 266264003784 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 266264003785 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 266264003786 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 266264003787 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 266264003788 molybdopterin cofactor binding site; other site 266264003789 substrate binding site; other site 266264003790 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 266264003791 molybdopterin cofactor binding site; other site 266264003792 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 266264003793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003794 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 266264003795 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 266264003796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003797 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264003798 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 266264003799 DctM-like transporters; Region: DctM; pfam06808 266264003800 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; cl09110 266264003801 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 266264003802 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...; Region: 4HBT; cd00586 266264003803 active site; other site 266264003804 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 266264003805 PAS domain S-box; Region: sensory_box; TIGR00229 266264003806 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....; Region: LuxR_C_like; cd06170 266264003807 DNA binding residues; other site 266264003808 dimerization interface; other site 266264003809 Coenzyme A transferase; Region: CoA_trans; cl00773 266264003810 Coenzyme A transferase; Region: CoA_trans; cl00773 266264003811 Protein of unknown function, DUF; Region: DUF411; cl01142 266264003812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003813 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 266264003814 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 266264003815 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 266264003816 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 266264003817 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 266264003818 homotrimer interaction site; other site 266264003819 putative active site; other site 266264003820 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 266264003821 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 266264003822 synthetase active site; other site 266264003823 NTP binding site; other site 266264003824 metal binding site; other site 266264003825 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...; Region: TGS_RelA_SpoT; cd01668 266264003826 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 266264003827 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 266264003828 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,...; Region: TGS_ThrRS_N; cd01667 266264003829 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 266264003830 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 266264003831 active site; other site 266264003832 dimer interface; other site 266264003833 motif 1; other site 266264003834 motif 2; other site 266264003835 motif 3; other site 266264003836 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 266264003837 anticodon binding site; other site 266264003838 translation initiation factor IF-3; Region: infC; TIGR00168 266264003839 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 266264003840 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 266264003841 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 266264003842 Ribosomal protein L20; Region: Ribosomal_L20; cl00393 266264003843 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 266264003844 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 266264003845 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 266264003846 dimer interface; other site 266264003847 motif 1; other site 266264003848 active site; other site 266264003849 motif 2; other site 266264003850 motif 3; other site 266264003851 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 266264003852 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 266264003853 putative tRNA-binding site; other site 266264003854 B3/4 domain; Region: B3_4; cl11458 266264003855 tRNA synthetase B5 domain; Region: B5; cl08394 266264003856 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 266264003857 dimer interface; other site 266264003858 motif 1; other site 266264003859 motif 3; other site 266264003860 motif 2; other site 266264003861 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 266264003862 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 higher...; Region: HU_IHF; cd00591 266264003863 IHF - DNA interface; other site 266264003864 IHF dimer interface; other site 266264003865 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 266264003866 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 266264003867 DNA binding residues; other site 266264003868 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 266264003869 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 266264003870 putative trimer interface; other site 266264003871 putative CoA binding site; other site 266264003872 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 266264003873 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 266264003874 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 266264003875 catalytic residues; other site 266264003876 Transposase domain (DUF772); Region: DUF772; cl12084 266264003877 Transposase DDE domain; Region: Transposase_11; pfam01609 266264003878 SelR domain; Region: SelR; cl00369 266264003879 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264003880 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 266264003881 active site; other site 266264003882 phosphorylation site; other site 266264003883 intermolecular recognition site; other site 266264003884 dimerization interface; other site 266264003885 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...; Region: trans_reg_C; cd00383 266264003886 DNA binding site; other site 266264003887 sensory histidine kinase CreC; Provisional; Region: PRK11100 266264003888 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 trans-...; Region: HisKA; cd00082 266264003889 dimer interface; other site 266264003890 phosphorylation site; other site 266264003891 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 266264003892 ATP binding site; other site 266264003893 Mg2+ binding site; other site 266264003894 G-X-G motif; other site 266264003895 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 266264003896 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264003897 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 266264003898 dimerization interface; other site 266264003899 phosphopyruvate hydratase; Provisional; Region: eno; PRK00077 266264003900 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 266264003901 dimer interface; other site 266264003902 metal binding site; other site 266264003903 substrate binding pocket; other site 266264003904 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 266264003905 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...; Region: PBPb; cl11400 266264003906 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264003907 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 266264003908 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 266264003909 dimerization interface; other site 266264003910 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 266264003911 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 266264003912 active site; other site 266264003913 putative substrate binding pocket; other site 266264003914 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 266264003915 high affinity sulphate transporter 1; Region: sulP; TIGR00815 266264003916 Permease family; Region: Xan_ur_permease; cl00967 266264003917 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 266264003918 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 266264003919 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 266264003920 Peptidase family M3 dipeptidyl carboxypeptidase (DCP; Dcp II; peptidyl dipeptidase; EC 3.4.15.5). This metal-binding M3A family also includes oligopeptidase A (OpdA; EC 3.4.24.70) enzyme. DCP cleaves dipeptides off the C-termini of various peptides and...; Region: M3A_DCP_Oligopeptidase_A; cd06456 266264003921 active site; other site 266264003922 zinc binding site; other site 266264003923 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 266264003924 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 266264003925 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 266264003926 homodimer interface; other site 266264003927 NADP binding site; other site 266264003928 substrate binding site; other site 266264003929 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 266264003930 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 266264003931 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 266264003932 active site; other site 266264003933 phosphorylation site; other site 266264003934 intermolecular recognition site; other site 266264003935 dimerization interface; other site 266264003936 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...; Region: LuxR_C_like; cd06170 266264003937 DNA binding residues; other site 266264003938 dimerization interface; other site 266264003939 PAS domain S-box; Region: sensory_box; TIGR00229 266264003940 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 266264003941 putative active site; other site 266264003942 heme pocket; other site 266264003943 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 266264003944 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 trans-...; Region: HisKA; cd00082 266264003945 dimer interface; other site 266264003946 phosphorylation site; other site 266264003947 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 266264003948 ATP binding site; other site 266264003949 Mg2+ binding site; other site 266264003950 G-X-G motif; other site 266264003951 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 266264003952 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 266264003953 dimer interface; other site 266264003954 TPP-binding site; other site 266264003955 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 266264003956 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 266264003957 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 266264003958 E3 interaction surface; other site 266264003959 lipoyl attachment site; other site 266264003960 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 266264003961 E3 interaction surface; other site 266264003962 lipoyl attachment site; other site 266264003963 e3 binding domain; Region: E3_binding; pfam02817 266264003964 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 266264003965 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded...; Region: proteasome_protease_HslV; cd01906 266264003966 active site; other site 266264003967 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 266264003968 E3 interaction surface; other site 266264003969 lipoyl attachment site; other site 266264003970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003971 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 266264003972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264003973 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 266264003974 Phasin protein; Region: Phasin_2; cl11491 266264003975 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 266264003976 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...; Region: 4HBT; cd00586 266264003977 active site; other site 266264003978 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a...; Region: Nitroreductase; cd02136 266264003979 putative FMN binding site; other site 266264003980 Beta-lactamase; Region: Beta-lactamase; cl01009 266264003981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264003982 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264003983 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264003984 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 266264003985 Cysteine-rich domain; Region: CCG; pfam02754 266264003986 Cysteine-rich domain; Region: CCG; pfam02754 266264003987 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 266264003988 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 266264003989 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 alpha-.; Region: HCP_like; cl00255 266264003990 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 266264003991 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 266264003992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264003993 Walker A/P-loop; other site 266264003994 ATP binding site; other site 266264003995 Q-loop/lid; other site 266264003996 ABC transporter signature motif; other site 266264003997 Walker B; other site 266264003998 D-loop; other site 266264003999 H-loop/switch region; other site 266264004000 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 266264004001 TM-ABC transporter signature motif; other site 266264004002 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 266264004003 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 266264004004 zinc binding site; other site 266264004005 putative ligand binding site; other site 266264004006 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...; Region: Aldo_ket_red; cd06660 266264004007 active site; other site 266264004008 catalytic tetrad; other site 266264004009 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...; Region: DHOD_2_like; cd04738 266264004010 quinone interaction residues; other site 266264004011 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 266264004012 active site; other site 266264004013 catalytic residues; other site 266264004014 FMN binding site; other site 266264004015 substrate binding site; other site 266264004016 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 266264004017 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 266264004018 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 266264004019 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 266264004020 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 266264004021 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 266264004022 nudix motif; other site 266264004023 RES domain; Region: RES; cl02411 266264004024 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 266264004025 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 266264004026 4Fe-4S binding domain; Region: Fer4; pfam00037 266264004027 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 266264004028 dimerization interface; other site 266264004029 FAD binding pocket; other site 266264004030 FAD binding motif; other site 266264004031 catalytic residues; other site 266264004032 NAD binding pocket; other site 266264004033 phosphate binding motif; other site 266264004034 beta-alpha-beta structure motif; other site 266264004035 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 266264004036 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 266264004037 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 266264004038 substrate binding site; other site 266264004039 oxyanion hole (OAH) forming residues; other site 266264004040 trimer interface; other site 266264004041 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 266264004042 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 266264004043 non-specific DNA binding site; other site 266264004044 salt bridge; other site 266264004045 sequence-specific DNA binding site; other site 266264004046 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...; Region: SK; cd00464 266264004047 ADP binding site; other site 266264004048 magnesium binding site; other site 266264004049 putative shikimate binding site; other site 266264004050 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 266264004051 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264004052 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264004053 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 266264004054 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264004055 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 266264004056 putative ligand binding site; other site 266264004057 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 266264004058 TM-ABC transporter signature motif; other site 266264004059 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 266264004060 TM-ABC transporter signature motif; other site 266264004061 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 266264004062 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 266264004063 Walker A/P-loop; other site 266264004064 ATP binding site; other site 266264004065 Q-loop/lid; other site 266264004066 ABC transporter signature motif; other site 266264004067 Walker B; other site 266264004068 D-loop; other site 266264004069 H-loop/switch region; other site 266264004070 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264004071 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 266264004072 Walker A/P-loop; other site 266264004073 ATP binding site; other site 266264004074 Q-loop/lid; other site 266264004075 ABC transporter signature motif; other site 266264004076 Walker B; other site 266264004077 D-loop; other site 266264004078 H-loop/switch region; other site 266264004079 K+ potassium transporter; Region: K_trans; cl01227 266264004080 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 266264004081 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 266264004082 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 266264004083 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 266264004084 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...; Region: S1_Tex; cd05685 266264004085 RNA binding site; other site 266264004086 MAEBL; Provisional; Region: PTZ00121 266264004087 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 266264004088 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; cl12029 266264004089 helicase superfamily c-terminal domain; Region: HELICc2; cl09250 266264004090 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 266264004091 Phage integrase family; Region: Phage_integrase; pfam00589 266264004092 Int/Topo IB signature motif; other site 266264004093 active site; other site 266264004094 DNA binding site; other site 266264004095 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 266264004096 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 266264004097 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 266264004098 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 266264004099 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes...; Region: INT_pAE1; cd01188 266264004100 Int/Topo IB signature motif; other site 266264004101 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 266264004102 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 266264004103 DNA binding site; other site 266264004104 Int/Topo IB signature motif; other site 266264004105 active site; other site 266264004106 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 266264004107 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 266264004108 Int/Topo IB signature motif; other site 266264004109 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 266264004110 Domain of unknown function (DUF932); Region: DUF932; cl12129 266264004111 ParB-like nuclease domain; Region: ParBc; cl02129 266264004112 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 266264004113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 266264004114 Coenzyme A binding pocket; other site 266264004115 Protein of unknown function (DUF736); Region: DUF736; cl02303 266264004116 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264004117 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 266264004118 Integrase core domain; Region: rve; cl01316 266264004119 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 266264004120 Replication initiator protein A; Region: RPA; cl02339 266264004121 ParA-like protein; Provisional; Region: PHA02518 266264004122 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...; Region: ParA; cd02042 266264004123 P-loop; other site 266264004124 Magnesium ion binding site; other site 266264004125 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 266264004126 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88),...; Region: Peptidase_S24_S26; cl10465 266264004127 Peptidase S26; Region: Peptidase_S26; pfam10502 266264004128 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 266264004129 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 266264004130 Cytochrome C'; Region: Cytochrom_C_2; cl01610 266264004131 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 266264004132 Transposase, Mutator family; Region: Transposase_mut; pfam00872 266264004133 MULE transposase domain; Region: MULE; pfam10551 266264004134 transposase/IS protein; Provisional; Region: PRK09183 266264004135 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...; Region: AAA; cd00009 266264004136 Walker A motif; other site 266264004137 ATP binding site; other site 266264004138 Walker B motif; other site 266264004139 arginine finger; other site 266264004140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 266264004141 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....; Region: LuxR_C_like; cl10457 266264004142 DNA binding residues; other site 266264004143 Integrase core domain; Region: rve; cl01316 266264004144 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 266264004145 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 266264004146 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264004147 Beta-Casp domain; Region: Beta-Casp; pfam10996 266264004148 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 266264004149 NodT family; Region: outer_NodT; TIGR01845 266264004150 Outer membrane efflux protein; Region: OEP; pfam02321 266264004151 Outer membrane efflux protein; Region: OEP; pfam02321 266264004152 ABC-2 type transporter; Region: ABC2_membrane; cl11417 266264004153 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 266264004154 ABC-2 type transporter; Region: ABC2_membrane; cl11417 266264004155 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 266264004156 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 266264004157 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes...; Region: INT_pAE1; cd01188 266264004158 Int/Topo IB signature motif; other site 266264004159 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 266264004160 Phage integrase family; Region: Phage_integrase; pfam00589 266264004161 Int/Topo IB signature motif; other site 266264004162 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 266264004163 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 266264004164 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 266264004165 DNA binding site; other site 266264004166 Int/Topo IB signature motif; other site 266264004167 active site; other site 266264004168 Integrase core domain; Region: rve; cl01316 266264004169 Integrase core domain; Region: rve; cl01316 266264004170 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004171 Walker B; other site 266264004172 D-loop; other site 266264004173 H-loop/switch region; other site 266264004174 Integrase core domain; Region: rve; cl01316 266264004175 putative transposase OrfB; Reviewed; Region: PHA02517 266264004176 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264004177 Integrase core domain; Region: rve; cl01316 266264004178 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 266264004179 dimerization interface; other site 266264004180 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 266264004181 ATP binding site; other site 266264004182 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 266264004183 Hydrogenase formation hypA family; Region: HypD; cl12072 266264004184 HupF/HypC family; Region: HupF_HypC; cl00394 266264004185 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 266264004186 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 266264004187 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264004188 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 266264004189 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 266264004190 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...; Region: rubredoxin; cd00730 266264004191 iron binding site; other site 266264004192 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 266264004193 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 266264004194 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as...; Region: HyaE; cd02965 266264004195 HupF/HypC family; Region: HupF_HypC; cl00394 266264004196 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 266264004197 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase...; Region: H2MP_MemB-H2up; cd06062 266264004198 putative substrate-binding site; other site 266264004199 nickel binding site; other site 266264004200 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264004201 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 266264004202 HupE / UreJ protein; Region: HupE_UreJ; cl01011 266264004203 hydrogenase 2 large subunit; Provisional; Region: PRK10467 266264004204 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 266264004205 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 266264004206 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 266264004207 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 266264004208 Integrase core domain; Region: rve; cl01316 266264004209 Integrase core domain; Region: rve; cl01316 266264004210 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; cl01116 266264004211 Transposase DDE domain; Region: Transposase_11; pfam01609 266264004212 Activator of aromatic catabolism; Region: XylR_N; pfam06505 266264004213 V4R domain; Region: V4R; cl08369 266264004214 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 266264004215 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...; Region: AAA; cd00009 266264004216 Walker A motif; other site 266264004217 ATP binding site; other site 266264004218 Walker B motif; other site 266264004219 arginine finger; other site 266264004220 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264004221 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 266264004222 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 266264004223 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 266264004224 Formaldehyde dehydrogenases; Region: FDH_like; cd05278 266264004225 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 266264004226 catalytic Zn binding site; other site 266264004227 NAD(P) binding site; other site 266264004228 structural Zn binding site; other site 266264004229 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 266264004230 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 266264004231 catalytic loop; other site 266264004232 iron binding site; other site 266264004233 Toluene-4-monoxygenase electron transfer component of Pseudomonas mendocina hydroxylates toluene and forms p-cresol as part of a three component toluene-4-monoxygenase system. Electron transfer is from NADH to an NADH:ferredoxin oxidoreductase (TmoF in...; Region: T4MO_e_transfer_like; cd06190 266264004234 FAD binding pocket; other site 266264004235 FAD binding motif; other site 266264004236 phosphate binding motif; other site 266264004237 beta-alpha-beta structure motif; other site 266264004238 NAD binding pocket; other site 266264004239 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 266264004240 dimerization interface; other site 266264004241 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 266264004242 Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent...; Region: Rieske_T4moC; cd03474 266264004243 [2Fe-2S] cluster binding site; other site 266264004244 Toluene-4-monooxygenase system protein B (TmoB); Region: TmoB; pfam06234 266264004245 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 266264004246 dimerization interface; other site 266264004247 putative path to active site cavity; other site 266264004248 diiron center; other site 266264004249 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; cd00491 266264004250 active site 1; other site 266264004251 dimer interface; other site 266264004252 hexamer interface; other site 266264004253 active site 2; other site 266264004254 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264004255 4-hydroxy-2-ketovalerate aldolase; Validated; Region: PRK08195 266264004256 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 266264004257 active site; other site 266264004258 catalytic residues; other site 266264004259 metal binding site; other site 266264004260 DmpG-like communication domain; Region: DmpG_comm; pfam07836 266264004261 acetaldehyde dehydrogenase; Validated; Region: PRK08300 266264004262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264004263 Prokaryotic acetaldehyde dehydrogenase, dimerization; Region: AcetDehyd-dimer; pfam09290 266264004264 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264004265 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 266264004266 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 266264004267 NAD binding site; other site 266264004268 catalytic residues; other site 266264004269 Domain of unknown function (DUF336); Region: DUF336; cl01249 266264004270 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 266264004271 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264004272 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264004273 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 266264004274 catalytic loop; other site 266264004275 iron binding site; other site 266264004276 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 266264004277 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 266264004278 catalytic loop; other site 266264004279 iron binding site; other site 266264004280 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P).; Region: phenol_2-monooxygenase_like; cd06211 266264004281 FAD binding pocket; other site 266264004282 FAD binding motif; other site 266264004283 phosphate binding motif; other site 266264004284 beta-alpha-beta structure motif; other site 266264004285 NAD binding pocket; other site 266264004286 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 266264004287 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 266264004288 dimerization interface; other site 266264004289 putative path to active site cavity; other site 266264004290 diiron center; other site 266264004291 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 266264004292 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 266264004293 dimerization interface; other site 266264004294 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 266264004295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264004296 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 266264004297 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 266264004298 Ligand Binding Site; other site 266264004299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264004300 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264004301 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 266264004302 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264004303 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 266264004304 dimerization interface; other site 266264004305 substrate binding pocket; other site 266264004306 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 266264004307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004308 Walker A motif; other site 266264004309 ATP binding site; other site 266264004310 Walker B motif; other site 266264004311 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 266264004312 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...; Region: VirB11-like_ATPase; cd01130 266264004313 ATP binding site; other site 266264004314 Walker A motif; other site 266264004315 hexamer interface; other site 266264004316 Walker B motif; other site 266264004317 TrbC/VIRB2 family; Region: TrbC; cl01583 266264004318 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 266264004319 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 266264004320 VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 266264004321 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004322 Walker A motif; other site 266264004323 ATP binding site; other site 266264004324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004325 Walker B; other site 266264004326 D-loop; other site 266264004327 H-loop/switch region; other site 266264004328 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 266264004329 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 266264004330 VirB8 protein; Region: VirB8; cl01500 266264004331 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 266264004332 VirB7 interaction site; other site 266264004333 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 266264004334 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 266264004335 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 266264004336 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 266264004337 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 266264004338 RNA binding surface; other site 266264004339 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 266264004340 active site; other site 266264004341 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 266264004342 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 266264004343 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 266264004344 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 266264004345 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 266264004346 acetyl-CoA acetyltransferase; Provisional; Region: PRK05790 266264004347 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 266264004348 dimer interface; other site 266264004349 active site; other site 266264004350 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 266264004351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264004352 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 266264004353 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 266264004354 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 266264004355 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 266264004356 MiaB-like tRNA modifying enzyme YliG, TIGR01125; Region: TIGR01125 266264004357 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 266264004358 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 266264004359 FeS/SAM binding site; other site 266264004360 beta-ketothiolase; Provisional; Region: PRK09051 266264004361 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 266264004362 dimer interface; other site 266264004363 active site; other site 266264004364 cystathionine beta-lyase; Provisional; Region: PRK07050 266264004365 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 266264004366 pyridoxal 5'-phosphate binding pocket; other site 266264004367 catalytic residue; other site 266264004368 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 266264004369 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 266264004370 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 266264004371 motif II; other site 266264004372 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 266264004373 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...; Region: PBPb; cd00134 266264004374 substrate binding pocket; other site 266264004375 membrane-bound complex binding site; other site 266264004376 hinge residues; other site 266264004377 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 266264004378 active site; other site 266264004379 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 266264004380 dimer interface; other site 266264004381 non-prolyl cis peptide bond; other site 266264004382 insertion regions; other site 266264004383 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...; Region: TM_PBP2; cd06261 266264004384 putative PBP binding loops; other site 266264004385 dimer interface; other site 266264004386 ABC-ATPase subunit interface; other site 266264004387 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 266264004388 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 266264004389 Walker A/P-loop; other site 266264004390 ATP binding site; other site 266264004391 Q-loop/lid; other site 266264004392 ABC transporter signature motif; other site 266264004393 Walker B; other site 266264004394 D-loop; other site 266264004395 H-loop/switch region; other site 266264004396 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 266264004397 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 266264004398 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...; Region: TM_PBP2; cd06261 266264004399 dimer interface; other site 266264004400 conserved gate region; other site 266264004401 putative PBP binding loops; other site 266264004402 ABC-ATPase subunit interface; other site 266264004403 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...; Region: TM_PBP2; cd06261 266264004404 dimer interface; other site 266264004405 conserved gate region; other site 266264004406 putative PBP binding loops; other site 266264004407 ABC-ATPase subunit interface; other site 266264004408 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 266264004409 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 solute...; Region: ABC_CysA_sulfate_importer; cd03296 266264004410 Walker A/P-loop; other site 266264004411 ATP binding site; other site 266264004412 Q-loop/lid; other site 266264004413 ABC transporter signature motif; other site 266264004414 Walker B; other site 266264004415 D-loop; other site 266264004416 H-loop/switch region; other site 266264004417 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 266264004418 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 266264004419 substrate binding site; other site 266264004420 dimerization interface; other site 266264004421 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 266264004422 Histidine kinase; Region: His_kinase; pfam06580 266264004423 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 266264004424 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 266264004425 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 266264004426 active site; other site 266264004427 phosphorylation site; other site 266264004428 intermolecular recognition site; other site 266264004429 dimerization interface; other site 266264004430 LytTr DNA-binding domain; Region: LytTR; cl04498 266264004431 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 266264004432 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 266264004433 putative active site pocket; other site 266264004434 dimerization interface; other site 266264004435 putative catalytic residue; other site 266264004436 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264004437 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 266264004438 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 266264004439 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 266264004440 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 266264004441 tetramer interface; other site 266264004442 active site; other site 266264004443 Mg2+/Mn2+ binding site; other site 266264004444 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 266264004445 Uncharacterized protein conserved in bacteria (DUF2329); Region: DUF2329; pfam10091 266264004446 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 266264004447 Ligand Binding Site; other site 266264004448 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 266264004449 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264004450 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 266264004451 putative effector binding pocket; other site 266264004452 dimerization interface; other site 266264004453 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 266264004454 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 266264004455 motif II; other site 266264004456 malate synthase A; Region: malate_syn_A; TIGR01344 266264004457 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 266264004458 active site; other site 266264004459 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264004460 Domain of unknown function (DUF1857); Region: DUF1857; pfam08982 266264004461 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264004462 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264004463 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264004464 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 266264004465 acyl-CoA binding pocket; other site 266264004466 CoA binding site; other site 266264004467 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 266264004468 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264004469 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 266264004470 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 266264004471 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 266264004472 lysophospholipid transporter LplT; Provisional; Region: PRK11195 266264004473 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264004474 alanine racemase; Reviewed; Region: dadX; PRK03646 266264004475 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 266264004476 active site; other site 266264004477 pyridoxal 5'-phosphate (PLP) binding site; other site 266264004478 substrate binding site; other site 266264004479 catalytic residues; other site 266264004480 dimer interface; other site 266264004481 DNA repair protein RadA; Provisional; Region: PRK11823 266264004482 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 266264004483 Walker A motif/ATP binding site; other site 266264004484 ATP binding site; other site 266264004485 Walker B motif; other site 266264004486 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 266264004487 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 266264004488 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 266264004489 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...; Region: ABCF_EF-3; cd03221 266264004490 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...; Region: ABCF_EF-3; cd03221 266264004491 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...; Region: ABCF_EF-3; cd03221 266264004492 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 266264004493 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...; Region: SIS_RpiR; cd05013 266264004494 putative active site; other site 266264004495 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 266264004496 catalytic nucleophile; other site 266264004497 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 266264004498 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 266264004499 Walker A/P-loop; other site 266264004500 ATP binding site; other site 266264004501 Q-loop/lid; other site 266264004502 ABC transporter signature motif; other site 266264004503 Walker B; other site 266264004504 D-loop; other site 266264004505 H-loop/switch region; other site 266264004506 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264004507 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 266264004508 Walker A/P-loop; other site 266264004509 ATP binding site; other site 266264004510 Q-loop/lid; other site 266264004511 ABC transporter signature motif; other site 266264004512 Walker B; other site 266264004513 D-loop; other site 266264004514 H-loop/switch region; other site 266264004515 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264004516 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 266264004517 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 266264004518 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...; Region: TM_PBP2; cd06261 266264004519 dimer interface; other site 266264004520 conserved gate region; other site 266264004521 putative PBP binding loops; other site 266264004522 ABC-ATPase subunit interface; other site 266264004523 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...; Region: TM_PBP2; cd06261 266264004524 dimer interface; other site 266264004525 conserved gate region; other site 266264004526 putative PBP binding loops; other site 266264004527 ABC-ATPase subunit interface; other site 266264004528 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 266264004529 homodimer interface; other site 266264004530 homotetramer interface; other site 266264004531 active site pocket; other site 266264004532 cleavage site; other site 266264004533 D-aminopeptidase; Region: Peptidase_M55; cl01007 266264004534 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_6; cd06233 266264004535 putative active site; other site 266264004536 Zn-binding site; other site 266264004537 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 266264004538 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 266264004539 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 266264004540 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 266264004541 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 266264004542 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 266264004543 Cytochrome c; Region: Cytochrom_C; cl11414 266264004544 Cytochrome c; Region: Cytochrom_C; cl11414 266264004545 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 266264004546 HemK family putative methylases; Region: hemK_fam; TIGR00536 266264004547 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 266264004548 S-adenosylmethionine binding site; other site 266264004549 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264004550 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 266264004551 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 266264004552 putative catalytic residues; other site 266264004553 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 266264004554 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA....; Region: LbH_THP_succinylT; cd03350 266264004555 trimer interface; other site 266264004556 active site; other site 266264004557 substrate binding site; other site 266264004558 CoA binding site; other site 266264004559 aspartate aminotransferase; Provisional; Region: PRK07681 266264004560 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 266264004561 pyridoxal 5'-phosphate binding site; other site 266264004562 homodimer interface; other site 266264004563 catalytic residue; other site 266264004564 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 266264004565 dinuclear metal binding motif; other site 266264004566 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 266264004567 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 266264004568 Walker A/P-loop; other site 266264004569 ATP binding site; other site 266264004570 Q-loop/lid; other site 266264004571 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 266264004572 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 266264004573 ABC transporter signature motif; other site 266264004574 Walker B; other site 266264004575 D-loop; other site 266264004576 H-loop/switch region; other site 266264004577 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 266264004578 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 266264004579 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 266264004580 nucleotide binding pocket; other site 266264004581 K-X-D-G motif; other site 266264004582 catalytic site; other site 266264004583 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 266264004584 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 266264004585 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 266264004586 Dimer interface; other site 266264004587 BRCT sequence motif; other site 266264004588 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...; Region: Pep_deformylase; cd00487 266264004589 active site; other site 266264004590 catalytic residues; other site 266264004591 metal binding site; other site 266264004592 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264004593 putative substrate translocation pore; other site 266264004594 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264004595 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264004596 MAEBL; Provisional; Region: PTZ00121 266264004597 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 266264004598 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 266264004599 RNA binding surface; other site 266264004600 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 266264004601 active site; other site 266264004602 PII uridylyl-transferase; Provisional; Region: PRK03059 266264004603 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 266264004604 metal binding triad; other site 266264004605 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 266264004606 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 266264004607 Zn2+ binding site; other site 266264004608 Mg2+ binding site; other site 266264004609 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 266264004610 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 266264004611 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 266264004612 active site; other site 266264004613 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 266264004614 rRNA interaction site; other site 266264004615 S8 interaction site; other site 266264004616 putative laminin-1 binding site; other site 266264004617 elongation factor Ts; Provisional; Region: tsf; PRK09377 266264004618 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 266264004619 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 266264004620 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 266264004621 putative nucleotide binding site; other site 266264004622 uridine monophosphate binding site; other site 266264004623 homohexameric interface; other site 266264004624 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 266264004625 hinge region; other site 266264004626 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 266264004627 catalytic residue; other site 266264004628 putative FPP diphosphate binding site; other site 266264004629 putative FPP binding hydrophobic cleft; other site 266264004630 dimer interface; other site 266264004631 putative IPP diphosphate binding site; other site 266264004632 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 266264004633 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 266264004634 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 266264004635 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 266264004636 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 266264004637 zinc metallopeptidase RseP; Provisional; Region: PRK10779 266264004638 active site; other site 266264004639 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...; Region: PDZ_metalloprotease; cd00989 266264004640 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 266264004641 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 266264004642 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 266264004643 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 266264004644 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 266264004645 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 266264004646 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 266264004647 Surface antigen; Region: Bac_surface_Ag; cl03097 266264004648 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 266264004649 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 266264004650 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 266264004651 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-2,3-...; Region: LbH_LpxD; cd03352 266264004652 trimer interface; other site 266264004653 active site; other site 266264004654 UDP-GlcNAc binding site; other site 266264004655 lipid binding site; other site 266264004656 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 266264004657 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 266264004658 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 266264004659 active site; other site 266264004660 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 266264004661 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 266264004662 bacterial Ribonuclease HII-like; Region: RNaseH_typeII_bacteria_HII_like; cd07182 266264004663 Active site; other site 266264004664 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 266264004665 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 266264004666 Domain of unknown function (DUF299); Region: DUF299; cl00780 266264004667 phosphoenolpyruvate synthase; Validated; Region: PRK06464 266264004668 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 266264004669 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 266264004670 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 266264004671 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 266264004672 SmpB protein; Region: SmpB; cl00482 266264004673 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 266264004674 Uncharacterized protein family (UPF0125); Region: UPF0125; cl01096 266264004675 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 266264004676 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 266264004677 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 266264004678 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...; Region: IMPDH; cd00381 266264004679 active site; other site 266264004680 GMP synthase; Reviewed; Region: guaA; PRK00074 266264004681 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 266264004682 AMP/PPi binding site; other site 266264004683 candidate oxyanion hole; other site 266264004684 catalytic triad; other site 266264004685 potential glutamine specificity residues; other site 266264004686 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 266264004687 ATP Binding subdomain; other site 266264004688 Ligand Binding sites; other site 266264004689 Dimerization subdomain; other site 266264004690 integrase; Provisional; Region: PRK09692 266264004691 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 266264004692 active site; other site 266264004693 Int/Topo IB signature motif; other site 266264004694 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl01302 266264004695 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl01302 266264004696 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 266264004697 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 266264004698 active site; other site 266264004699 KAP family P-loop domain; Region: KAP_NTPase; cl09221 266264004700 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 266264004701 putative active site; other site 266264004702 putative NTP binding site; other site 266264004703 putative nucleic acid binding site; other site 266264004704 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 266264004705 Domain of unknown function (DUF932); Region: DUF932; cl12129 266264004706 ParB-like nuclease domain; Region: ParBc; cl02129 266264004707 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 266264004708 Protein of unknown function (DUF736); Region: DUF736; cl02303 266264004709 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 266264004710 non-specific DNA binding site; other site 266264004711 salt bridge; other site 266264004712 sequence-specific DNA binding site; other site 266264004713 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 266264004714 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 266264004715 Replication initiator protein A; Region: RPA; cl02339 266264004716 ParA-like protein; Provisional; Region: PHA02518 266264004717 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...; Region: ParA; cd02042 266264004718 P-loop; other site 266264004719 Magnesium ion binding site; other site 266264004720 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 266264004721 Peptidase S26; Region: Peptidase_S26; pfam10502 266264004722 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88),...; Region: Peptidase_S24_S26; cl10465 266264004723 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 266264004724 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 266264004725 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264004726 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264004727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264004728 Transposase; Region: Transposase_7; pfam01526 266264004729 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264004730 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...; Region: TBP_aldolase_IIB; cd00947 266264004731 intersubunit interface; other site 266264004732 active site; other site 266264004733 zinc binding site; other site 266264004734 Na+ binding site; other site 266264004735 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; cl11391 266264004736 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; cl11391 266264004737 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 266264004738 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 266264004739 metal ion-dependent adhesion site (MIDAS); other site 266264004740 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 266264004741 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004742 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 266264004743 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 266264004744 multimerization interface; other site 266264004745 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 266264004746 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 266264004747 dimer interface; other site 266264004748 catalytic residue; other site 266264004749 metal binding site; other site 266264004750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264004751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264004752 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 266264004753 putative dimerization interface; other site 266264004754 Transposase, Mutator family; Region: Transposase_mut; pfam00872 266264004755 MULE transposase domain; Region: MULE; pfam10551 266264004756 Transposase; Region: Transposase_7; pfam01526 266264004757 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264004758 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-1,7...; Region: FBPase; cd00354 266264004759 AMP binding site; other site 266264004760 metal binding site; other site 266264004761 active site; other site 266264004762 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 266264004763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264004764 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 266264004765 putative dimerization interface; other site 266264004766 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cl01843 266264004767 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...; Region: RPE; cd00429 266264004768 substrate binding site; other site 266264004769 hexamer interface; other site 266264004770 metal binding site; other site 266264004771 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-1,7...; Region: FBPase; cd00354 266264004772 AMP binding site; other site 266264004773 metal binding site; other site 266264004774 active site; other site 266264004775 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 266264004776 transketolase; Reviewed; Region: PRK05899 266264004777 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 266264004778 TPP-binding site; other site 266264004779 dimer interface; other site 266264004780 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 266264004781 PYR/PP interface; other site 266264004782 dimer interface; other site 266264004783 TPP binding site; other site 266264004784 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 266264004785 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 266264004786 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 266264004787 motif II; other site 266264004788 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 266264004789 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 266264004790 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 266264004791 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 266264004792 substrate binding site; other site 266264004793 hinge regions; other site 266264004794 ADP binding site; other site 266264004795 catalytic site; other site 266264004796 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 266264004797 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 266264004798 motif II; other site 266264004799 tagatose-bisphosphate aldolase; Reviewed; Region: gatY; PRK09195 266264004800 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...; Region: TBP_aldolase_IIB; cd00947 266264004801 intersubunit interface; other site 266264004802 active site; other site 266264004803 zinc binding site; other site 266264004804 Na+ binding site; other site 266264004805 pyruvate kinase; Provisional; Region: PRK06247 266264004806 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; cl10032 266264004807 domain interfaces; other site 266264004808 active site; other site 266264004809 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 266264004810 substrate binding site; other site 266264004811 dimer interface; other site 266264004812 catalytic triad; other site 266264004813 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 266264004814 tetramer (dimer of dimers) interface; other site 266264004815 active site; other site 266264004816 dimer interface; other site 266264004817 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, hoxF; composed of proteins similar to the NAD-reducing hydrogenase (hoxS) alpha subunit of Alcaligenes eutrophus H16. HoxS is a cytoplasmic hydrogenase...; Region: TRX_Fd_NuoE_hoxF; cd03083 266264004818 putative dimer interface; other site 266264004819 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 266264004820 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 266264004821 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 266264004822 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 266264004823 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 266264004824 catalytic loop; other site 266264004825 iron binding site; other site 266264004826 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 266264004827 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 266264004828 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 266264004829 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 266264004830 nickel binding site; other site 266264004831 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 266264004832 ligand binding site; other site 266264004833 flexible hinge region; other site 266264004834 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 266264004835 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; cl12011 266264004836 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264004837 Integrase core domain; Region: rve; cl01316 266264004838 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 266264004839 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 266264004840 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 266264004841 High-affinity nickel-transport protein; Region: NicO; cl00964 266264004842 Hydrogenase expression/synthesis hypA family; Region: HypA; cl00418 266264004843 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 266264004844 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264004845 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 266264004846 Acylphosphatase; Region: Acylphosphatase; cl00551 266264004847 HypF finger; Region: zf-HYPF; pfam07503 266264004848 HypF finger; Region: zf-HYPF; pfam07503 266264004849 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 266264004850 HupF/HypC family; Region: HupF_HypC; cl00394 266264004851 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 266264004852 Hydrogenase formation hypA family; Region: HypD; cl12072 266264004853 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 266264004854 dimerization interface; other site 266264004855 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 266264004856 ATP binding site; other site 266264004857 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 266264004858 Formyl transferase; Region: Formyl_trans_N; cl00395 266264004859 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 266264004860 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 266264004861 substrate binding site; other site 266264004862 oxyanion hole (OAH) forming residues; other site 266264004863 trimer interface; other site 266264004864 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 266264004865 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 266264004866 active site; other site 266264004867 phosphorylation site; other site 266264004868 intermolecular recognition site; other site 266264004869 dimerization interface; other site 266264004870 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 266264004871 Transposase; Region: Transposase_7; pfam01526 266264004872 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264004873 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 266264004874 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264004875 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 266264004876 dimerization interface; other site 266264004877 substrate binding pocket; other site 266264004878 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 266264004879 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004880 Walker A motif; other site 266264004881 ATP binding site; other site 266264004882 Walker B motif; other site 266264004883 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 266264004884 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...; Region: VirB11-like_ATPase; cd01130 266264004885 ATP binding site; other site 266264004886 Walker A motif; other site 266264004887 hexamer interface; other site 266264004888 Walker B motif; other site 266264004889 TrbC/VIRB2 family; Region: TrbC; cl01583 266264004890 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 266264004891 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 266264004892 VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 266264004893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004894 Walker A motif; other site 266264004895 ATP binding site; other site 266264004896 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004897 Walker B; other site 266264004898 D-loop; other site 266264004899 H-loop/switch region; other site 266264004900 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 266264004901 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 266264004902 conjugal transfer protein TrbL; Provisional; Region: PRK13875 266264004903 VirB8 protein; Region: VirB8; cl01500 266264004904 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 266264004905 VirB7 interaction site; other site 266264004906 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 266264004907 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 266264004908 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 266264004909 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 266264004910 Domain of unknown function (DUF1814); Region: DUF1814; cl00973 266264004911 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 266264004912 putative transposase OrfB; Reviewed; Region: PHA02517 266264004913 Integrase core domain; Region: rve; cl01316 266264004914 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 266264004915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264004916 NAD(P) binding pocket; other site 266264004917 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264004918 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 266264004919 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264004920 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264004921 PAS domain S-box; Region: sensory_box; TIGR00229 266264004922 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 266264004923 putative active site; other site 266264004924 heme pocket; other site 266264004925 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 266264004926 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 266264004927 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 266264004928 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; cl14056 266264004929 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 266264004930 active site; other site 266264004931 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 266264004932 nucleoside/Zn binding site; other site 266264004933 dimer interface; other site 266264004934 catalytic motif; other site 266264004935 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 266264004936 dimer interface; other site 266264004937 catalytic triad; other site 266264004938 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 266264004939 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004940 Walker A/P-loop; other site 266264004941 ATP binding site; other site 266264004942 ABC transporter signature motif; other site 266264004943 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264004944 ABC transporter signature motif; other site 266264004945 Walker B; other site 266264004946 Walker B; other site 266264004947 D-loop; other site 266264004948 D-loop; other site 266264004949 H-loop/switch region; other site 266264004950 H-loop/switch region; other site 266264004951 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...; Region: ABCF_EF-3; cd03221 266264004952 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 266264004953 NAD binding site; other site 266264004954 catalytic residues; other site 266264004955 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 266264004956 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 four-...; Region: Ntn_hydrolase; cl00467 266264004957 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 7-...; Region: Ntn_PGA_like; cd03747 266264004958 active site; other site 266264004959 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 266264004960 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 266264004961 catalytic triad; other site 266264004962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 266264004963 MOSC domain; Region: MOSC; pfam03473 266264004964 3-alpha domain; Region: 3-alpha; pfam03475 266264004965 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 266264004966 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 266264004967 CoenzymeA binding site; other site 266264004968 subunit interaction site; other site 266264004969 PHB binding site; other site 266264004970 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cd00411 266264004971 tetramer interface; other site 266264004972 active site/substrate binding site; other site 266264004973 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 266264004974 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 266264004975 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 266264004976 substrate binding site; other site 266264004977 ligand binding site; other site 266264004978 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 266264004979 substrate binding site; other site 266264004980 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 266264004981 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 (...; Region: Ec2MCS_like_1; cd06117 266264004982 dimer interface; other site 266264004983 active site; other site 266264004984 citrylCoA binding site; other site 266264004985 oxalacetate/citrate binding site; other site 266264004986 coenzyme A binding site; other site 266264004987 catalytic triad; other site 266264004988 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 266264004989 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 266264004990 tetramer interface; other site 266264004991 active site; other site 266264004992 Mg2+/Mn2+ binding site; other site 266264004993 Propionate catabolism activator; Region: PrpR_N; pfam06506 266264004994 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 266264004995 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 266264004996 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...; Region: AAA; cd00009 266264004997 Walker A motif; other site 266264004998 ATP binding site; other site 266264004999 Walker B motif; other site 266264005000 arginine finger; other site 266264005001 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264005002 conserved hypothetical protein TIGR03440; Region: unchr_TIGR03440 266264005003 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 266264005004 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264005005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005006 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 266264005007 dimerization interface; other site 266264005008 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264005009 Integrase core domain; Region: rve; cl01316 266264005010 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 266264005011 DoxX; Region: DoxX; cl00976 266264005012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264005013 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 266264005014 Cupin domain; Region: Cupin_2; cl09118 266264005015 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...; Region: PBPb; cl11400 266264005016 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 266264005017 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,...; Region: TM_PBP2; cd06261 266264005018 dimer interface; other site 266264005019 conserved gate region; other site 266264005020 putative PBP binding loops; other site 266264005021 ABC-ATPase subunit interface; other site 266264005022 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 266264005023 Cytochrome c; Region: Cytochrom_C; cl11414 266264005024 putative xanthine dehydrogenase iron-sulfur-binding subunit; Provisional; Region: PRK11433 266264005025 Transcriptional regulators [Transcription]; Region: MarR; COG1846 266264005026 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005027 Surface antigen; Region: Bac_surface_Ag; cl03097 266264005028 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 266264005029 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264005030 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264005031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264005032 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264005033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005034 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 266264005035 dimerization interface; other site 266264005036 LrgA family; Region: LrgA; cl00608 266264005037 LrgB-like family; Region: LrgB; cl00596 266264005038 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 266264005039 FAD binding domain; Region: FAD_binding_4; cl10516 266264005040 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 266264005041 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264005042 DNA-binding site; other site 266264005043 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 266264005044 pyridoxal 5'-phosphate binding site; other site 266264005045 homodimer interface; other site 266264005046 catalytic residue; other site 266264005047 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264005048 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 266264005049 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 266264005050 putative transposase OrfB; Reviewed; Region: PHA02517 266264005051 Integrase core domain; Region: rve; cl01316 266264005052 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; cl01116 266264005053 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 266264005054 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...; Region: TM_PBP2; cd06261 266264005055 dimer interface; other site 266264005056 conserved gate region; other site 266264005057 putative PBP binding loops; other site 266264005058 ABC-ATPase subunit interface; other site 266264005059 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...; Region: TM_PBP2; cd06261 266264005060 dimer interface; other site 266264005061 conserved gate region; other site 266264005062 putative PBP binding loops; other site 266264005063 ABC-ATPase subunit interface; other site 266264005064 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 266264005065 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 266264005066 Walker A/P-loop; other site 266264005067 ATP binding site; other site 266264005068 Q-loop/lid; other site 266264005069 ABC transporter signature motif; other site 266264005070 Walker B; other site 266264005071 D-loop; other site 266264005072 H-loop/switch region; other site 266264005073 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264005074 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 266264005075 Walker A/P-loop; other site 266264005076 ATP binding site; other site 266264005077 Q-loop/lid; other site 266264005078 ABC transporter signature motif; other site 266264005079 Walker B; other site 266264005080 D-loop; other site 266264005081 H-loop/switch region; other site 266264005082 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264005083 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 266264005084 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 266264005085 inhibitor-cofactor binding pocket; other site 266264005086 pyridoxal 5'-phosphate binding site; other site 266264005087 catalytic residue; other site 266264005088 thiamine pyrophosphate protein; Validated; Region: PRK08199 266264005089 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 266264005090 PYR/PP interface; other site 266264005091 dimer interface; other site 266264005092 TPP binding site; other site 266264005093 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 266264005094 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...; Region: TPP_enzymes; cd00568 266264005095 TPP-binding site; other site 266264005096 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 266264005097 allantoate amidohydrolase; Reviewed; Region: PRK12893 266264005098 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264005099 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 266264005100 NAD(P) binding site; other site 266264005101 catalytic residues; other site 266264005102 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 266264005103 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264005104 putative substrate translocation pore; other site 266264005105 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264005106 Transcriptional regulators [Transcription]; Region: MarR; COG1846 266264005107 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005108 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 266264005109 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 266264005110 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264005111 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 trans-...; Region: HisKA; cd00082 266264005112 dimer interface; other site 266264005113 phosphorylation site; other site 266264005114 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 266264005115 ATP binding site; other site 266264005116 Mg2+ binding site; other site 266264005117 G-X-G motif; other site 266264005118 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264005119 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 266264005120 active site; other site 266264005121 phosphorylation site; other site 266264005122 intermolecular recognition site; other site 266264005123 dimerization interface; other site 266264005124 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...; Region: trans_reg_C; cd00383 266264005125 DNA binding site; other site 266264005126 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...; Region: gram_neg_porins; cd00342 266264005127 trimer interface; other site 266264005128 eyelet of channel; other site 266264005129 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 266264005130 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 266264005131 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 266264005132 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264005133 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005134 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 266264005135 putative dimerization interface; other site 266264005136 2-hydroxy-3-oxopropionate reductase; Region: tartro_sem_red; TIGR01505 266264005137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005138 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 266264005139 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 266264005140 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 266264005141 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...; Region: PBPb; cl11400 266264005142 thiamine pyrophosphate protein; Validated; Region: PRK08199 266264005143 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 266264005144 PYR/PP interface; other site 266264005145 dimer interface; other site 266264005146 TPP binding site; other site 266264005147 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 266264005148 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...; Region: TPP_enzymes; cd00568 266264005149 TPP-binding site; other site 266264005150 pyruvate carboxylase; Reviewed; Region: PRK12999 266264005151 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 266264005152 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264005153 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 266264005154 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 266264005155 active site; other site 266264005156 catalytic residues; other site 266264005157 metal binding site; other site 266264005158 homodimer binding site; other site 266264005159 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 266264005160 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 266264005161 carboxyltransferase (CT) interaction site; other site 266264005162 biotinylation site; other site 266264005163 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...; Region: gram_neg_porins; cd00342 266264005164 trimer interface; other site 266264005165 eyelet of channel; other site 266264005166 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264005167 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 266264005168 putative ligand binding site; other site 266264005169 Putative cyclase; Region: Cyclase; cl00814 266264005170 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...; Region: Nudix_Hydrolase; cl00447 266264005171 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264005172 DNA polymerase II; Reviewed; Region: PRK05762 266264005173 The 3'-5' exonuclease domain of Escherichia coli DNA polymerase II (PolII) and similar bacterial proteins. PolII is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide...; Region: DNA_polB_II_exo; cd05784 266264005174 active site; other site 266264005175 catalytic site; other site 266264005176 substrate binding site; other site 266264005177 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 266264005178 active site; other site 266264005179 metal-binding site; other site 266264005180 Mechanosensitive ion channel; Region: MS_channel; pfam00924 266264005181 Anti-sigma-K factor rskA; Region: RskA; cl02208 266264005182 RNA polymerase sigma factor; Provisional; Region: PRK12514 266264005183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264005184 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...; Region: Sigma70_r4; cd06171 266264005185 DNA binding residues; other site 266264005186 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 266264005187 dinuclear metal binding motif; other site 266264005188 Inner membrane protein CreD; Region: CreD; cl01844 266264005189 sensory histidine kinase CreC; Provisional; Region: PRK11100 266264005190 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 connected by an extended linker. The...; Region: HAMP; cd06225 266264005191 dimerization interface; other site 266264005192 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 trans-...; Region: HisKA; cl00080 266264005193 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 266264005194 ATP binding site; other site 266264005195 Mg2+ binding site; other site 266264005196 G-X-G motif; other site 266264005197 DNA-binding response regulator CreB; Provisional; Region: PRK11083 266264005198 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 266264005199 active site; other site 266264005200 phosphorylation site; other site 266264005201 intermolecular recognition site; other site 266264005202 dimerization interface; other site 266264005203 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...; Region: trans_reg_C; cd00383 266264005204 DNA binding site; other site 266264005205 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 266264005206 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 266264005207 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 266264005208 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 266264005209 GST_C family, ECM4-like subfamily; composed of predominantly uncharacterized and taxonomically diverse proteins with similarity to the translation product of the Saccharomyces cerevisiae gene ECM4. ECM4, a gene of unknown function, is involved in cell...; Region: GST_C_ECM4_like; cd03190 266264005210 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 266264005211 Integrase core domain; Region: rve; cl01316 266264005212 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 266264005213 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 266264005214 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 266264005215 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 266264005216 Fimbrial Usher protein; Region: Usher; pfam00577 266264005217 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 266264005218 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 266264005219 Fimbrial protein; Region: Fimbrial; cl01416 266264005220 Integrase core domain; Region: rve; cl01316 266264005221 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 266264005222 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 266264005223 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 266264005224 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 266264005225 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 266264005226 (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...; Region: R_hydratase; cd03449 266264005227 dimer interaction site; other site 266264005228 substrate-binding tunnel; other site 266264005229 active site; other site 266264005230 catalytic site; other site 266264005231 substrate binding site; other site 266264005232 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 266264005233 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 266264005234 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 266264005235 Ligand Binding Site; other site 266264005236 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 266264005237 Ligand Binding Site; other site 266264005238 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 266264005239 active site; other site 266264005240 Int/Topo IB signature motif; other site 266264005241 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; cl01948 266264005242 NeuB family; Region: NeuB; cl00496 266264005243 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 266264005244 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264005245 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264005246 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 266264005247 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 266264005248 ABC-2 type transporter; Region: ABC2_membrane; cl11417 266264005249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264005250 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 266264005251 Walker A/P-loop; other site 266264005252 ATP binding site; other site 266264005253 Q-loop/lid; other site 266264005254 ABC transporter signature motif; other site 266264005255 Walker B; other site 266264005256 D-loop; other site 266264005257 H-loop/switch region; other site 266264005258 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264005259 Walker A/P-loop; other site 266264005260 ATP binding site; other site 266264005261 Q-loop/lid; other site 266264005262 ABC transporter signature motif; other site 266264005263 Walker B; other site 266264005264 D-loop; other site 266264005265 H-loop/switch region; other site 266264005266 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 266264005267 ABC-2 type transporter; Region: ABC2_membrane; cl11417 266264005268 hypothetical protein; Provisional; Region: PRK03598 266264005269 NodT family; Region: outer_NodT; TIGR01845 266264005270 Outer membrane efflux protein; Region: OEP; pfam02321 266264005271 Outer membrane efflux protein; Region: OEP; pfam02321 266264005272 PAS domain S-box; Region: sensory_box; TIGR00229 266264005273 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 266264005274 putative active site; other site 266264005275 heme pocket; other site 266264005276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264005277 metal binding site; other site 266264005278 active site; other site 266264005279 I-site; other site 266264005280 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 266264005281 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 266264005282 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 266264005283 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 266264005284 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 266264005285 ligand binding site; other site 266264005286 flexible hinge region; other site 266264005287 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005288 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264005289 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 266264005290 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 266264005291 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 trans-...; Region: HisKA; cd00082 266264005292 dimer interface; other site 266264005293 phosphorylation site; other site 266264005294 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 266264005295 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 266264005296 ATP binding site; other site 266264005297 G-X-G motif; other site 266264005298 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 266264005299 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 266264005300 active site; other site 266264005301 phosphorylation site; other site 266264005302 intermolecular recognition site; other site 266264005303 dimerization interface; other site 266264005304 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...; Region: LuxR_C_like; cd06170 266264005305 DNA binding residues; other site 266264005306 dimerization interface; other site 266264005307 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 266264005308 active site; other site 266264005309 phosphorylation site; other site 266264005310 intermolecular recognition site; other site 266264005311 dimerization interface; other site 266264005312 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cl02586 266264005313 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264005314 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 266264005315 NodT family; Region: outer_NodT; TIGR01845 266264005316 Outer membrane efflux protein; Region: OEP; pfam02321 266264005317 Outer membrane efflux protein; Region: OEP; pfam02321 266264005318 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 266264005319 Active site; other site 266264005320 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 266264005321 Domain of unknown function DUF20; Region: UPF0118; cl00465 266264005322 NodT family; Region: outer_NodT; TIGR01845 266264005323 Outer membrane efflux protein; Region: OEP; pfam02321 266264005324 Outer membrane efflux protein; Region: OEP; pfam02321 266264005325 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 266264005326 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,...; Region: Biotinyl_lipoyl_domains; cl11404 266264005327 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 266264005328 Ion channel; Region: Ion_trans_2; cl11596 266264005329 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264005330 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 266264005331 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 266264005332 NADP binding site; other site 266264005333 dimer interface; other site 266264005334 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...; Region: CAS_like; cl00184 266264005335 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 266264005336 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 266264005337 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264005338 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...; Region: PBPb; cl11400 266264005339 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005340 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264005341 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 266264005342 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264005343 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264005344 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264005345 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264005346 active site; other site 266264005347 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264005348 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 266264005349 substrate binding site; other site 266264005350 oxyanion hole (OAH) forming residues; other site 266264005351 trimer interface; other site 266264005352 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 266264005353 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 266264005354 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264005355 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 266264005356 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 266264005357 carboxyltransferase (CT) interaction site; other site 266264005358 biotinylation site; other site 266264005359 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 266264005360 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...; Region: PBPb; cl11400 266264005361 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264005362 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 266264005363 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 266264005364 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264005365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264005366 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...; Region: gram_neg_porins; cd00342 266264005367 trimer interface; other site 266264005368 eyelet of channel; other site 266264005369 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 266264005370 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 266264005371 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264005372 putative substrate translocation pore; other site 266264005373 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 266264005374 NodT family; Region: outer_NodT; TIGR01845 266264005375 Outer membrane efflux protein; Region: OEP; pfam02321 266264005376 Outer membrane efflux protein; Region: OEP; pfam02321 266264005377 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 266264005378 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 266264005379 DXD motif; other site 266264005380 PilZ domain; Region: PilZ; cl01260 266264005381 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 266264005382 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 266264005383 Ligand Binding Site; other site 266264005384 conserved hypothetical protein TIGR03442; Region: TIGR03442 266264005385 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 266264005386 putative active site; other site 266264005387 putative dimer interface; other site 266264005388 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 266264005389 AMP-binding domain protein; Validated; Region: PRK07529 266264005390 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264005391 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 266264005392 NodT family; Region: outer_NodT; TIGR01845 266264005393 Outer membrane efflux protein; Region: OEP; pfam02321 266264005394 Outer membrane efflux protein; Region: OEP; pfam02321 266264005395 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264005396 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 266264005397 MMPL family; Region: MMPL; cl12044 266264005398 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 266264005399 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 266264005400 active site; other site 266264005401 phosphorylation site; other site 266264005402 intermolecular recognition site; other site 266264005403 dimerization interface; other site 266264005404 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...; Region: trans_reg_C; cd00383 266264005405 DNA binding site; other site 266264005406 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 266264005407 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 trans-...; Region: HisKA; cd00082 266264005408 dimer interface; other site 266264005409 phosphorylation site; other site 266264005410 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 266264005411 ATP binding site; other site 266264005412 Mg2+ binding site; other site 266264005413 G-X-G motif; other site 266264005414 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...; Region: PBPb; cl11400 266264005415 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264005416 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264005417 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005418 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 266264005419 putative effector binding pocket; other site 266264005420 dimerization interface; other site 266264005421 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 266264005422 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 266264005423 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...; Region: ABCF_EF-3; cd03221 266264005424 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...; Region: ABCF_EF-3; cd03221 266264005425 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...; Region: ABCF_EF-3; cd03221 266264005426 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264005427 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 266264005428 Integral membrane protein TerC family; Region: TerC; cl10468 266264005429 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 266264005430 Transporter associated domain; Region: CorC_HlyC; pfam03471 266264005431 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 266264005432 Domain of unknown function (DU1801); Region: DUF1801; cl01838 266264005433 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 266264005434 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 266264005435 pyridoxal 5'-phosphate binding pocket; other site 266264005436 catalytic residue; other site 266264005437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264005438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005439 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 266264005440 dimerization interface; other site 266264005441 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 266264005442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005443 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...; Region: PBPb; cl11400 266264005444 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 266264005445 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; cl11426 266264005446 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264005447 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264005448 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264005449 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005450 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 266264005451 dimerization interface; other site 266264005452 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 266264005453 FAD binding domain; Region: FAD_binding_4; cl10516 266264005454 Berberine and berberine like; Region: BBE; pfam08031 266264005455 Beta-lactamase; Region: Beta-lactamase; cl01009 266264005456 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 266264005457 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 266264005458 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 266264005459 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264005460 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 266264005461 S-adenosylmethionine binding site; other site 266264005462 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 266264005463 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 266264005464 dimer interface; other site 266264005465 active site; other site 266264005466 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 266264005467 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 266264005468 catalytic loop; other site 266264005469 iron binding site; other site 266264005470 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P).; Region: phenol_2-monooxygenase_like; cd06211 266264005471 FAD binding pocket; other site 266264005472 FAD binding motif; other site 266264005473 phosphate binding motif; other site 266264005474 beta-alpha-beta structure motif; other site 266264005475 NAD binding pocket; other site 266264005476 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 266264005477 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 266264005478 dimerization interface; other site 266264005479 putative path to active site cavity; other site 266264005480 diiron center; other site 266264005481 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 266264005482 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 266264005483 dimerization interface; other site 266264005484 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 266264005485 Activator of aromatic catabolism; Region: XylR_N; pfam06505 266264005486 V4R domain; Region: V4R; cl08369 266264005487 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 266264005488 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...; Region: AAA; cd00009 266264005489 Walker A motif; other site 266264005490 ATP binding site; other site 266264005491 Walker B motif; other site 266264005492 arginine finger; other site 266264005493 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264005494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264005495 DNA-binding site; other site 266264005496 FCD domain; Region: FCD; cl11656 266264005497 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 266264005498 FAD binding domain; Region: FAD_binding_4; cl10516 266264005499 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264005500 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 266264005501 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 266264005502 Walker A/P-loop; other site 266264005503 ATP binding site; other site 266264005504 Q-loop/lid; other site 266264005505 ABC transporter signature motif; other site 266264005506 Walker B; other site 266264005507 D-loop; other site 266264005508 H-loop/switch region; other site 266264005509 Predicted permease; Region: FtsX; cl11418 266264005510 Predicted permease; Region: FtsX; cl11418 266264005511 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264005512 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005513 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 266264005514 putative dimerization interface; other site 266264005515 Fusaric acid resistance protein family; Region: FUSC; pfam04632 266264005516 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 266264005517 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 266264005518 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 266264005519 dimerization interface; other site 266264005520 putative DNA binding site; other site 266264005521 Predicted transcriptional regulators [Transcription]; Region: COG1510 266264005522 putative Zn2+ binding site; other site 266264005523 Transcriptional regulators [Transcription]; Region: MarR; COG1846 266264005524 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005525 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...; Region: PBPb; cl11400 266264005526 Sulfatase; Region: Sulfatase; cl10460 266264005527 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 266264005528 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 266264005529 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 266264005530 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 266264005531 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 266264005532 active site; other site 266264005533 metal binding site; other site 266264005534 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 266264005535 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 266264005536 tetramer interface; other site 266264005537 active site; other site 266264005538 Mg2+/Mn2+ binding site; other site 266264005539 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 266264005540 active site; other site 266264005541 metal binding site; other site 266264005542 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 266264005543 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 266264005544 PYR/PP interface; other site 266264005545 dimer interface; other site 266264005546 TPP binding site; other site 266264005547 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 bialaphos tripeptide in Streptomyces hygroscopicus...; Region: TPP_PpyrDC; cd03371 266264005548 TPP-binding site; other site 266264005549 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 266264005550 pyridoxal 5'-phosphate binding pocket; other site 266264005551 catalytic residue; other site 266264005552 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 266264005553 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264005554 Active site; other site 266264005555 signature motif; other site 266264005556 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264005557 Active site; other site 266264005558 signature motif; other site 266264005559 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 266264005560 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 266264005561 [2Fe-2S] cluster binding site; other site 266264005562 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264005563 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264005564 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 266264005565 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264005566 active site; other site 266264005567 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...; Region: PBPb; cl11400 266264005568 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264005569 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264005570 active site; other site 266264005571 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264005572 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005573 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264005574 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264005575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005576 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264005577 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 266264005578 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 266264005579 N-terminal plug; other site 266264005580 ligand-binding site; other site 266264005581 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 266264005582 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 266264005583 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264005584 Mechanosensitive ion channel; Region: MS_channel; pfam00924 266264005585 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 266264005586 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 266264005587 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 266264005588 Zn2+ binding site; other site 266264005589 Mg2+ binding site; other site 266264005590 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...; Region: DnaJ; cd06257 266264005591 HSP70 interaction site; other site 266264005592 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 266264005593 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 266264005594 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 266264005595 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 266264005596 active site; other site 266264005597 PilZ domain; Region: PilZ; cl01260 266264005598 DNA polymerase III subunit delta'; Validated; Region: PRK06964 266264005599 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264005600 thymidylate kinase; Validated; Region: tmk; PRK00698 266264005601 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...; Region: TMPK; cd01672 266264005602 TMP-binding site; other site 266264005603 ATP-binding site; other site 266264005604 YceG-like family; Region: YceG; pfam02618 266264005605 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 266264005606 dimerization interface; other site 266264005607 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 266264005608 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 266264005609 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 266264005610 Protein of unknown function (DUF833); Region: DUF833; cl01315 266264005611 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264005612 Transcriptional regulators [Transcription]; Region: FadR; COG2186 266264005613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264005614 DNA-binding site; other site 266264005615 FCD domain; Region: FCD; cl11656 266264005616 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 266264005617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005618 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 266264005619 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 266264005620 intersubunit interface; other site 266264005621 active site; other site 266264005622 Zn2+ binding site; other site 266264005623 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 266264005624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264005625 putative substrate translocation pore; other site 266264005626 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 266264005627 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 266264005628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005629 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...; Region: 4HBT; cd00586 266264005630 active site; other site 266264005631 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...; Region: PBPb; cl11400 266264005632 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 266264005633 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 266264005634 substrate binding pocket; other site 266264005635 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 266264005636 putative ADP-ribose binding site; other site 266264005637 putative active site; other site 266264005638 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264005639 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 266264005640 hypothetical protein; Provisional; Region: PRK06194 266264005641 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005642 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 266264005643 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 266264005644 C-terminal domain interface; other site 266264005645 GSH binding site (G-site); other site 266264005646 dimer interface; other site 266264005647 Glutathione S-transferase (GST) family, C-terminal alpha helical 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...; Region: GST_C_family; cd00299 266264005648 N-terminal domain interface; other site 266264005649 dimer interface; other site 266264005650 substrate binding pocket (H-site); other site 266264005651 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 266264005652 intersubunit interface; other site 266264005653 active site; other site 266264005654 Zn2+ binding site; other site 266264005655 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 266264005656 Prostaglandin dehydrogenases; Region: PGDH; cd05288 266264005657 NAD(P) binding site; other site 266264005658 substrate binding site; other site 266264005659 dimer interface; other site 266264005660 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 266264005661 CoenzymeA binding site; other site 266264005662 subunit interaction site; other site 266264005663 PHB binding site; other site 266264005664 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 266264005665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005666 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 266264005667 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264005668 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 266264005669 FAD binding site; other site 266264005670 substrate binding site; other site 266264005671 catalytic residues; other site 266264005672 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 266264005673 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 266264005674 dimer interface; other site 266264005675 active site; other site 266264005676 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 266264005677 Isochorismatase family; Region: Isochorismatase; pfam00857 266264005678 catalytic triad; other site 266264005679 metal binding site; other site 266264005680 conserved cis-peptide bond; other site 266264005681 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 266264005682 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 266264005683 substrate binding site; other site 266264005684 oxyanion hole (OAH) forming residues; other site 266264005685 trimer interface; other site 266264005686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005687 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264005688 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264005689 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 266264005690 Amino acid permease; Region: AA_permease; pfam00324 266264005691 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264005692 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 266264005693 Walker A/P-loop; other site 266264005694 ATP binding site; other site 266264005695 Q-loop/lid; other site 266264005696 ABC transporter signature motif; other site 266264005697 Walker B; other site 266264005698 D-loop; other site 266264005699 H-loop/switch region; other site 266264005700 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 266264005701 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 266264005702 Walker A/P-loop; other site 266264005703 ATP binding site; other site 266264005704 Q-loop/lid; other site 266264005705 ABC transporter signature motif; other site 266264005706 Walker B; other site 266264005707 D-loop; other site 266264005708 H-loop/switch region; other site 266264005709 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 266264005710 TM-ABC transporter signature motif; other site 266264005711 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 266264005712 TM-ABC transporter signature motif; other site 266264005713 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264005714 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 266264005715 putative ligand binding site; other site 266264005716 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264005717 putative acyl-CoA synthetase; Provisional; Region: PRK06018 266264005718 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; cl00428 266264005719 SelR domain; Region: SelR; cl00369 266264005720 Intracellular septation protein A; Region: IspA; cl01098 266264005721 BolA-like protein; Region: BolA; cl00386 266264005722 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 266264005723 PPIC-type PPIASE domain; Region: Rotamase; cl08278 266264005724 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 266264005725 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 266264005726 dimerization interface; other site 266264005727 ATP binding site; other site 266264005728 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 266264005729 dimerization interface; other site 266264005730 ATP binding site; other site 266264005731 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 266264005732 putative active site; other site 266264005733 catalytic triad; other site 266264005734 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 266264005735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264005736 metal binding site; other site 266264005737 active site; other site 266264005738 I-site; other site 266264005739 amidase; Provisional; Region: PRK07056 266264005740 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; cl11426 266264005741 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 266264005742 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 266264005743 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; cl09110 266264005744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005745 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 266264005746 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 266264005747 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 266264005748 Carbohydrate kinase; Region: Carb_kinase; pfam01256 266264005749 putative substrate binding site; other site 266264005750 putative ATP binding site; other site 266264005751 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 266264005752 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 266264005753 active site; other site 266264005754 dimer interface; other site 266264005755 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 266264005756 dimer interface; other site 266264005757 active site; other site 266264005758 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 266264005759 Q-loop/lid; other site 266264005760 ATP binding site; other site 266264005761 ABC transporter signature motif; other site 266264005762 Walker B; other site 266264005763 D-loop; other site 266264005764 H-loop/switch region; other site 266264005765 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 266264005766 active site; other site 266264005767 catalytic triad; other site 266264005768 oxyanion hole; other site 266264005769 switch loop; other site 266264005770 peptidyl-prolyl cis-trans isomerase (rotamase D); Provisional; Region: PRK10788 266264005771 PPIC-type PPIASE domain; Region: Rotamase; cl08278 266264005772 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 266264005773 Found in ATP-dependent protease La (LON); Region: LON; cl01056 266264005774 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...; Region: AAA; cd00009 266264005775 Walker A motif; other site 266264005776 ATP binding site; other site 266264005777 Walker B motif; other site 266264005778 arginine finger; other site 266264005779 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 266264005780 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 266264005781 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 266264005782 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...; Region: AAA; cd00009 266264005783 Walker A motif; other site 266264005784 ATP binding site; other site 266264005785 Walker B motif; other site 266264005786 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 266264005787 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 266264005788 oligomer interface; other site 266264005789 active site residues; other site 266264005790 trigger factor; Provisional; Region: tig; PRK01490 266264005791 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 266264005792 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 266264005793 5-methylaminomethyl-2-thiouridine methyltransferase; Reviewed; Region: mnmC; PRK01747 266264005794 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; cl12011 266264005795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005796 Protein of unknown function (DUF519); Region: DUF519; cl04492 266264005797 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264005798 Active site; other site 266264005799 signature motif; other site 266264005800 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...; Region: LuxR_C_like; cd06170 266264005801 DNA binding residues; other site 266264005802 dimerization interface; other site 266264005803 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 266264005804 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 266264005805 putative effector binding pocket; other site 266264005806 dimerization interface; other site 266264005807 hypothetical protein; Validated; Region: PRK07586 266264005808 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 266264005809 PYR/PP interface; other site 266264005810 dimer interface; other site 266264005811 TPP binding site; other site 266264005812 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 benzoylformate to benzaldehyde and carbon dioxide. This...; Region: TPP_BFDC; cd02002 266264005813 TPP-binding site; other site 266264005814 dimer interface; other site 266264005815 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 266264005816 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 266264005817 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264005818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005819 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 266264005820 putative effector binding pocket; other site 266264005821 putative dimerization interface; other site 266264005822 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 266264005823 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 266264005824 NAD binding site; other site 266264005825 catalytic residues; other site 266264005826 pyruvate dehydrogenase; Provisional; Region: PRK09124 266264005827 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 266264005828 PYR/PP interface; other site 266264005829 tetramer interface; other site 266264005830 dimer interface; other site 266264005831 TPP binding site; other site 266264005832 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 266264005833 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...; Region: TPP_POX; cd02014 266264005834 TPP-binding site; other site 266264005835 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 266264005836 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005837 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 266264005838 dimerization interface; other site 266264005839 substrate binding pocket; other site 266264005840 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 266264005841 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 266264005842 Transcriptional regulators [Transcription]; Region: PurR; COG1609 266264005843 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 266264005844 DNA binding site; other site 266264005845 domain linker motif; other site 266264005846 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 266264005847 dimerization interface; other site 266264005848 ligand binding site; other site 266264005849 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...; Region: PBPb; cl11400 266264005850 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...; Region: gram_neg_porins; cd00342 266264005851 trimer interface; other site 266264005852 eyelet of channel; other site 266264005853 Cupin domain; Region: Cupin_2; cl09118 266264005854 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 266264005855 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; cl12011 266264005856 NAD(P) binding site; other site 266264005857 catalytic Zn binding site; other site 266264005858 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 266264005859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005860 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 266264005861 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 266264005862 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 266264005863 dimer interface; other site 266264005864 active site; other site 266264005865 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 266264005866 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 266264005867 Isochorismatase family; Region: Isochorismatase; pfam00857 266264005868 catalytic triad; other site 266264005869 dimer interface; other site 266264005870 conserved cis-peptide bond; other site 266264005871 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 266264005872 active site; other site 266264005873 dimerization interface; other site 266264005874 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...; Region: LuxR_C_like; cd06170 266264005875 DNA binding residues; other site 266264005876 dimerization interface; other site 266264005877 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 266264005878 dimer interface; other site 266264005879 catalytic triad; other site 266264005880 conserved cis-peptide bond; other site 266264005881 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 266264005882 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 266264005883 catalytic residues; other site 266264005884 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 266264005885 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 266264005886 Isochorismatase family; Region: Isochorismatase; pfam00857 266264005887 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 266264005888 catalytic triad; other site 266264005889 dimer interface; other site 266264005890 conserved cis-peptide bond; other site 266264005891 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; cl09957 266264005892 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 266264005893 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 266264005894 OsmC-like protein; Region: OsmC; cl00767 266264005895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264005896 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264005897 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 266264005898 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264005899 putative substrate translocation pore; other site 266264005900 amidase; Provisional; Region: PRK07056 266264005901 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; cl11426 266264005902 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 266264005903 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264005904 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264005905 DNA-binding site; other site 266264005906 FCD domain; Region: FCD; cl11656 266264005907 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005908 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264005909 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264005910 allantoate amidohydrolase; Reviewed; Region: PRK12893 266264005911 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264005912 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 266264005913 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_8; cd08495 266264005914 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...; Region: TM_PBP2; cd06261 266264005915 dimer interface; other site 266264005916 conserved gate region; other site 266264005917 putative PBP binding loops; other site 266264005918 ABC-ATPase subunit interface; other site 266264005919 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...; Region: TM_PBP2; cd06261 266264005920 dimer interface; other site 266264005921 conserved gate region; other site 266264005922 putative PBP binding loops; other site 266264005923 ABC-ATPase subunit interface; other site 266264005924 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 266264005925 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 266264005926 Walker A/P-loop; other site 266264005927 ATP binding site; other site 266264005928 Q-loop/lid; other site 266264005929 ABC transporter signature motif; other site 266264005930 Walker B; other site 266264005931 D-loop; other site 266264005932 H-loop/switch region; other site 266264005933 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264005934 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 266264005935 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 266264005936 Walker A/P-loop; other site 266264005937 ATP binding site; other site 266264005938 Q-loop/lid; other site 266264005939 ABC transporter signature motif; other site 266264005940 Walker B; other site 266264005941 D-loop; other site 266264005942 H-loop/switch region; other site 266264005943 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264005944 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; cl11426 266264005945 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 266264005946 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264005947 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 266264005948 dimerization interface; other site 266264005949 substrate binding pocket; other site 266264005950 Sulfite exporter TauE/SafE; Region: TauE; cl00498 266264005951 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 266264005952 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264005953 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 266264005954 active site lid residues; other site 266264005955 substrate binding pocket; other site 266264005956 catalytic residues; other site 266264005957 substrate-Mg2+ binding site; other site 266264005958 aspartate-rich region 1; other site 266264005959 aspartate-rich region 2; other site 266264005960 allantoate amidohydrolase; Reviewed; Region: PRK12893 266264005961 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264005962 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264005963 osmolarity response regulator; Provisional; Region: ompR; PRK09468 266264005964 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 266264005965 active site; other site 266264005966 phosphorylation site; other site 266264005967 intermolecular recognition site; other site 266264005968 dimerization interface; other site 266264005969 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...; Region: trans_reg_C; cd00383 266264005970 DNA binding site; other site 266264005971 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 266264005972 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264005973 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 266264005974 ATP binding site; other site 266264005975 Mg2+ binding site; other site 266264005976 G-X-G motif; other site 266264005977 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264005978 metabolite-proton symporter; Region: 2A0106; TIGR00883 266264005979 putative substrate translocation pore; other site 266264005980 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 266264005981 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...; Region: PRX_Typ2cys; cd03015 266264005982 dimer interface; other site 266264005983 decamer (pentamer of dimers) interface; other site 266264005984 catalytic triad; other site 266264005985 peroxidatic and resolving cysteines; other site 266264005986 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264005987 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264005988 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...; Region: MECDP_synthase; cd00554 266264005989 homotrimer interaction site; other site 266264005990 zinc binding site; other site 266264005991 CDP-binding sites; other site 266264005992 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 266264005993 substrate binding site; other site 266264005994 dimer interface; other site 266264005995 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 266264005996 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 266264005997 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 266264005998 ATP binding site; other site 266264005999 putative Mg++ binding site; other site 266264006000 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 266264006001 nucleotide binding region; other site 266264006002 ATP-binding site; other site 266264006003 TRCF domain; Region: TRCF; pfam03461 266264006004 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264006005 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 266264006006 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 266264006007 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 266264006008 OsmC-like protein; Region: OsmC; cl00767 266264006009 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 266264006010 Clp amino terminal domain; Region: Clp_N; pfam02861 266264006011 Clp amino terminal domain; Region: Clp_N; pfam02861 266264006012 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...; Region: AAA; cd00009 266264006013 Walker A motif; other site 266264006014 ATP binding site; other site 266264006015 Walker B motif; other site 266264006016 arginine finger; other site 266264006017 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...; Region: AAA; cd00009 266264006018 Walker A motif; other site 266264006019 ATP binding site; other site 266264006020 Walker B motif; other site 266264006021 arginine finger; other site 266264006022 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 266264006023 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 266264006024 CrcB-like protein; Region: CRCB; cl09114 266264006025 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 266264006026 MoaE homodimer interface; other site 266264006027 MoaD interaction; other site 266264006028 active site residues; other site 266264006029 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 266264006030 MoaE interaction surface; other site 266264006031 MoeB interaction surface; other site 266264006032 thiocarboxylated glycine; other site 266264006033 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 266264006034 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 266264006035 dimer interface; other site 266264006036 putative functional site; other site 266264006037 putative MPT binding site; other site 266264006038 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 266264006039 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...; Region: Thr-synth_2; cd01560 266264006040 pyridoxal 5'-phosphate binding site; other site 266264006041 catalytic residue; other site 266264006042 homoserine dehydrogenase; Provisional; Region: PRK06349 266264006043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264006044 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 266264006045 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 266264006046 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 266264006047 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 266264006048 pyridoxal 5'-phosphate binding site; other site 266264006049 homodimer interface; other site 266264006050 catalytic residue; other site 266264006051 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 266264006052 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...; Region: PRX_BCP; cd03017 266264006053 catalytic triad; other site 266264006054 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 266264006055 PIN domain; Region: PIN; cl09128 266264006056 PhoH-like protein; Region: PhoH; cl12134 266264006057 NlpC/P60 family; Region: NLPC_P60; cl11438 266264006058 Phosphate transporter family; Region: PHO4; cl00396 266264006059 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 266264006060 replicative DNA helicase; Provisional; Region: PRK07004 266264006061 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 266264006062 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 266264006063 Walker A motif; other site 266264006064 ATP binding site; other site 266264006065 Walker B motif; other site 266264006066 DNA binding loops; other site 266264006067 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 266264006068 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 266264006069 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 266264006070 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 266264006071 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 266264006072 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 266264006073 active site/substrate binding site; other site 266264006074 tetramer interface; other site 266264006075 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006076 LexA repressor; Validated; Region: PRK00215 266264006077 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 (...; Region: S24_LexA-like; cd06529 266264006078 Catalytic site; other site 266264006079 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 266264006080 pyridoxal 5'-phosphate binding site; other site 266264006081 homodimer interface; other site 266264006082 catalytic residue; other site 266264006083 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 266264006084 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 266264006085 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; cl09110 266264006086 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 266264006087 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 266264006088 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 266264006089 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...; Region: DUS_like_FMN; cd02801 266264006090 FMN binding site; other site 266264006091 active site; other site 266264006092 catalytic residues; other site 266264006093 substrate binding site; other site 266264006094 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; cl01116 266264006095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 266264006096 insertion element IS2 transposase InsD; Reviewed; Region: PRK09409 266264006097 Integrase core domain; Region: rve; cl01316 266264006098 Phosphate-starvation-inducible E; Region: PsiE; cl01264 266264006099 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 266264006100 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264006101 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264006102 Integrase core domain; Region: rve; cl01316 266264006103 DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 266264006104 Int/Topo IB signature motif; other site 266264006105 Integrase core domain; Region: rve; cl01316 266264006106 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264006107 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264006108 Phage capsid family; Region: Phage_capsid; pfam05065 266264006109 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 266264006110 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264006111 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 266264006112 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 266264006113 substrate binding site; other site 266264006114 oxyanion hole (OAH) forming residues; other site 266264006115 trimer interface; other site 266264006116 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; cl11392 266264006117 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 266264006118 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 266264006119 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 266264006120 G1 box; other site 266264006121 putative GEF interaction site; other site 266264006122 GTP/Mg2+ binding site; other site 266264006123 Switch I region; other site 266264006124 G2 box; other site 266264006125 G3 box; other site 266264006126 Switch II region; other site 266264006127 G4 box; other site 266264006128 G5 box; other site 266264006129 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 266264006130 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...; Region: BipA_TypA_C; cd03710 266264006131 Transcriptional regulators [Transcription]; Region: MarR; COG1846 266264006132 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006133 NodT family; Region: outer_NodT; TIGR01845 266264006134 Outer membrane efflux protein; Region: OEP; pfam02321 266264006135 Outer membrane efflux protein; Region: OEP; pfam02321 266264006136 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 266264006137 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 266264006138 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264006139 putative substrate translocation pore; other site 266264006140 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264006141 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 266264006142 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 266264006143 RNA binding site; other site 266264006144 active site; other site 266264006145 Ribosome-binding factor A; Region: RBFA; cl00542 266264006146 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 266264006147 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 266264006148 translation initiation factor IF-2; Region: IF-2; TIGR00487 266264006149 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 266264006150 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases,...; Region: IF2_eIF5B; cd01887 266264006151 G1 box; other site 266264006152 putative GEF interaction site; other site 266264006153 GTP/Mg2+ binding site; other site 266264006154 Switch I region; other site 266264006155 G2 box; other site 266264006156 G3 box; other site 266264006157 Switch II region; other site 266264006158 G4 box; other site 266264006159 G5 box; other site 266264006160 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...; Region: IF2_mtIF2_II; cd03702 266264006161 Translation-initiation factor 2; Region: IF-2; pfam11987 266264006162 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...; Region: mtIF2_IVc; cd03692 266264006163 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 266264006164 NusA N-terminal domain; Region: NusA_N; pfam08529 266264006165 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...; Region: S1_NusA; cd04455 266264006166 RNA binding site; other site 266264006167 homodimer interface; other site 266264006168 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 266264006169 G-X-X-G motif; other site 266264006170 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 266264006171 hypothetical protein; Reviewed; Region: PRK00092 266264006172 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...; Region: Sm_like; cl00259 266264006173 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 266264006174 Sm1 motif; other site 266264006175 predicted subunit interaction site; other site 266264006176 RNA binding pocket; other site 266264006177 Sm2 motif; other site 266264006178 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 266264006179 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 266264006180 RNA binding surface; other site 266264006181 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 266264006182 probable active site; other site 266264006183 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 266264006184 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 266264006185 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 266264006186 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 266264006187 ligand binding site; other site 266264006188 flexible hinge region; other site 266264006189 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 266264006190 putative switch regulator; other site 266264006191 non-specific DNA interactions; other site 266264006192 DNA binding site; other site 266264006193 sequence specific DNA binding site; other site 266264006194 putative cAMP binding site; other site 266264006195 FixH; Region: FixH; cl01254 266264006196 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 266264006197 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 266264006198 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 266264006199 Cytochrome c; Region: Cytochrom_C; cl11414 266264006200 Cytochrome c; Region: Cytochrom_C; cl11414 266264006201 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of...; Region: cbb3_Oxidase_CcoQ; cl00282 266264006202 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 266264006203 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the...; Region: cbb3_Oxidase_I; cd01661 266264006204 Low-spin heme binding site; other site 266264006205 Putative water exit pathway; other site 266264006206 Binuclear center (active site); other site 266264006207 Putative proton exit pathway; other site 266264006208 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 266264006209 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 266264006210 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 266264006211 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264006212 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; cl11391 266264006213 Predicted ATPase [General function prediction only]; Region: COG1485 266264006214 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 266264006215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264006216 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 266264006217 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 266264006218 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 266264006219 E3 interaction surface; other site 266264006220 lipoyl attachment site; other site 266264006221 e3 binding domain; Region: E3_binding; pfam02817 266264006222 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 266264006223 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 266264006224 Helix-hairpin-helix class 2 (Pol1 family) motif. HhH2 domains are found in Rad2 family of prokaryotic and eukaryotic replication and repair nucleases, i.e., DNA polymerase I, Taq DNA polymerase, DNA repair protein Rad2 endonuclease, flap endonuclease,...; Region: HhH2_motif; cl00079 266264006225 putative ssDNA interaction site; other site 266264006226 metal binding site II; other site 266264006227 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 266264006228 TPP-binding site; other site 266264006229 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 266264006230 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; cl00455 266264006231 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 266264006232 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 266264006233 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 266264006234 Walker A/P-loop; other site 266264006235 ATP binding site; other site 266264006236 Q-loop/lid; other site 266264006237 ABC transporter signature motif; other site 266264006238 Walker B; other site 266264006239 D-loop; other site 266264006240 H-loop/switch region; other site 266264006241 TOBE domain; Region: TOBE_2; cl01440 266264006242 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...; Region: TM_PBP2; cd06261 266264006243 dimer interface; other site 266264006244 conserved gate region; other site 266264006245 putative PBP binding loops; other site 266264006246 ABC-ATPase subunit interface; other site 266264006247 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 266264006248 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,...; Region: TM_PBP2; cl00427 266264006249 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 266264006250 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 266264006251 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 266264006252 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; cl11391 266264006253 Peptidase M30; Region: Peptidase_M30; pfam10460 266264006254 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 266264006255 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 266264006256 active site; other site 266264006257 phosphorylation site; other site 266264006258 intermolecular recognition site; other site 266264006259 dimerization interface; other site 266264006260 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...; Region: AAA; cd00009 266264006261 Walker A motif; other site 266264006262 ATP binding site; other site 266264006263 Walker B motif; other site 266264006264 arginine finger; other site 266264006265 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264006266 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 266264006267 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 trans...; Region: HisKA; cd00082 266264006268 dimer interface; other site 266264006269 phosphorylation site; other site 266264006270 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 266264006271 ATP binding site; other site 266264006272 Mg2+ binding site; other site 266264006273 G-X-G motif; other site 266264006274 glutamine synthetase; Provisional; Region: glnA; PRK09469 266264006275 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 266264006276 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 266264006277 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 266264006278 active site residue; other site 266264006279 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 266264006280 putative MPT binding site; other site 266264006281 Protein of unknown function (DUF540); Region: DUF540; cl01126 266264006282 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 266264006283 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 266264006284 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...; Region: WD40; cl02567 266264006285 structural tetrad; other site 266264006286 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 266264006287 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 266264006288 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 266264006289 ATP binding site; other site 266264006290 putative Mg++ binding site; other site 266264006291 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; cl12029 266264006292 Helicase associated domain (HA2); Region: HA2; cl04503 266264006293 Domain of unknown function (DUF1605); Region: DUF1605; pfam07717 266264006294 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 266264006295 N-acetylglutamate synthase; Validated; Region: PRK05279 266264006296 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 N-...; Region: AAK_NAGS-ABP; cd04237 266264006297 putative feedback inhibition sensing region; other site 266264006298 putative nucleotide binding site; other site 266264006299 putative substrate binding site; other site 266264006300 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264006301 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 266264006302 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 266264006303 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264006304 putative substrate translocation pore; other site 266264006305 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 266264006306 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 266264006307 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...; Region: MopB_Nitrate-R-NarG-like; cd02750 266264006308 [4Fe-4S] binding site; other site 266264006309 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 266264006310 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 266264006311 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 266264006312 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...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 266264006313 molybdopterin cofactor binding site; other site 266264006314 nitrate reductase, beta subunit; Region: narH; TIGR01660 266264006315 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 266264006316 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 266264006317 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 266264006318 active site clefts; other site 266264006319 zinc binding site; other site 266264006320 dimer interface; other site 266264006321 Cytochrome c; Region: Cytochrom_C; cl11414 266264006322 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 266264006323 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...; Region: WD40; cl02567 266264006324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006325 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 266264006326 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; cl14056 266264006327 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 266264006328 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...; Region: NPD_like; cd04730 266264006329 FMN binding site; other site 266264006330 substrate binding site; other site 266264006331 putative catalytic residue; other site 266264006332 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; cl11605 266264006333 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 266264006334 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264006335 GAF domain; Region: GAF; cl00853 266264006336 Histidine kinase; Region: HisKA_3; pfam07730 266264006337 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 266264006338 ATP binding site; other site 266264006339 Mg2+ binding site; other site 266264006340 G-X-G motif; other site 266264006341 transcriptional regulator NarL; Provisional; Region: PRK10651 266264006342 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 266264006343 active site; other site 266264006344 phosphorylation site; other site 266264006345 intermolecular recognition site; other site 266264006346 dimerization interface; other site 266264006347 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....; Region: LuxR_C_like; cd06170 266264006348 DNA binding residues; other site 266264006349 dimerization interface; other site 266264006350 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 266264006351 tetramer (dimer of dimers) interface; other site 266264006352 active site; other site 266264006353 dimer interface; other site 266264006354 Transaldolases including both TalA and TalB. The enzyme catalyses the reversible transfer of a dyhydroxyacetone moiety, derived from fructose-6-phosphate to erythrose-4-phosphate yielding sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate. The...; Region: Transaldolase_TalAB; cd00957 266264006355 active site; other site 266264006356 dimer interface; other site 266264006357 catalytic residue; other site 266264006358 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes...; Region: SIRT5_Af1_CobB; cd01412 266264006359 NAD+ binding site; other site 266264006360 substrate binding site; other site 266264006361 Zn binding site; other site 266264006362 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 266264006363 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 266264006364 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 266264006365 ribonuclease R; Region: RNase_R; TIGR02063 266264006366 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 266264006367 RNB domain; Region: RNB; pfam00773 266264006368 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...; Region: S1_RNase_R; cd04471 266264006369 RNA binding site; other site 266264006370 Predicted transcriptional regulator [Transcription]; Region: COG1959 266264006371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264006374 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 266264006375 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264006376 adenylosuccinate synthetase; Provisional; Region: PRK01117 266264006377 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 r-...; Region: AdSS; cd03108 266264006378 GDP-binding site; other site 266264006379 ACT binding site; other site 266264006380 IMP binding site; other site 266264006381 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 266264006382 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 266264006383 dimer interface; other site 266264006384 motif 1; other site 266264006385 active site; other site 266264006386 motif 2; other site 266264006387 motif 3; other site 266264006388 FtsH protease regulator HflC; Provisional; Region: PRK11029 266264006389 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 266264006390 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 266264006391 HflK protein; Region: hflK; TIGR01933 266264006392 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 266264006393 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 266264006394 G1 box; other site 266264006395 GTP/Mg2+ binding site; other site 266264006396 Switch I region; other site 266264006397 G2 box; other site 266264006398 G3 box; other site 266264006399 Switch II region; other site 266264006400 G4 box; other site 266264006401 G5 box; other site 266264006402 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 266264006403 Sm1 motif; other site 266264006404 intra - hexamer interaction site; other site 266264006405 inter - hexamer interaction site; other site 266264006406 nucleotide binding pocket; other site 266264006407 Sm2 motif; other site 266264006408 GTP-binding protein EngA; Reviewed; Region: engA; PRK00093 266264006409 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 266264006410 G1 box; other site 266264006411 GTP/Mg2+ binding site; other site 266264006412 Switch I region; other site 266264006413 G2 box; other site 266264006414 Switch II region; other site 266264006415 G3 box; other site 266264006416 G4 box; other site 266264006417 G5 box; other site 266264006418 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 266264006419 G1 box; other site 266264006420 GTP/Mg2+ binding site; other site 266264006421 Switch I region; other site 266264006422 G2 box; other site 266264006423 G3 box; other site 266264006424 Switch II region; other site 266264006425 G4 box; other site 266264006426 G5 box; other site 266264006427 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 266264006428 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 266264006429 Trp docking motif; other site 266264006430 active site; other site 266264006431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 266264006432 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 266264006433 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 266264006434 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 266264006435 dimer interface; other site 266264006436 motif 1; other site 266264006437 active site; other site 266264006438 motif 2; other site 266264006439 motif 3; other site 266264006440 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 266264006441 anticodon binding site; other site 266264006442 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; cl11686 266264006443 1-hydroxy-2-methyl-2-(e)-butenyl 4-diphosphate synthase [Lipid metabolism]; Region: gcpE; COG0821 266264006444 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 266264006445 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264006446 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264006447 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 266264006448 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 266264006449 binding surface; other site 266264006450 TPR motif; other site 266264006451 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 266264006452 binding surface; other site 266264006453 TPR motif; other site 266264006454 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 266264006455 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 266264006456 FeS/SAM binding site; other site 266264006457 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 266264006458 active site; other site 266264006459 multimer interface; other site 266264006460 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 266264006461 23S rRNA 5-methyluridine methyltransferase; Reviewed; Region: rumA; PRK13168 266264006462 TRAM domain; Region: TRAM; cl01282 266264006463 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; cl12011 266264006464 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 266264006465 A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same...; Region: DNA_polB_like1_exo; cd05782 266264006466 active site; other site 266264006467 catalytic site; other site 266264006468 substrate binding site; other site 266264006469 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: Exon_PolB; pfam10108 266264006470 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 266264006471 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 266264006472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264006473 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 266264006474 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...; Region: Sigma70_r4; cd06171 266264006475 DNA binding residues; other site 266264006476 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 266264006477 putative peptidoglycan binding site; other site 266264006478 Peptidase family M23; Region: Peptidase_M23; pfam01551 266264006479 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 266264006480 S-adenosylmethionine binding site; other site 266264006481 Survival protein SurE; Region: SurE; cl00448 266264006482 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 266264006483 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 266264006484 NAD(P) binding site; other site 266264006485 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...; Region: TM_PBP2; cd06261 266264006486 dimer interface; other site 266264006487 conserved gate region; other site 266264006488 putative PBP binding loops; other site 266264006489 ABC-ATPase subunit interface; other site 266264006490 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 266264006491 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 266264006492 Walker A/P-loop; other site 266264006493 ATP binding site; other site 266264006494 Q-loop/lid; other site 266264006495 ABC transporter signature motif; other site 266264006496 Walker B; other site 266264006497 D-loop; other site 266264006498 H-loop/switch region; other site 266264006499 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...; Region: PBPb; cl11400 266264006500 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...; Region: PBPb; cl11400 266264006501 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 266264006502 active site; other site 266264006503 catalytic residues; other site 266264006504 metal binding site; other site 266264006505 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264006506 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264006507 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006508 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 266264006509 putative dimerization interface; other site 266264006510 recombination protein RecR; Reviewed; Region: recR; PRK00076 266264006511 RecR protein; Region: RecR; pfam02132 266264006512 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 266264006513 putative active site; other site 266264006514 putative metal-binding site; other site 266264006515 tetramer interface; other site 266264006516 Uncharacterized BCR, YbaB family COG0718; Region: DUF149; cl00494 266264006517 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 266264006518 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...; Region: AAA; cd00009 266264006519 Walker A motif; other site 266264006520 ATP binding site; other site 266264006521 Walker B motif; other site 266264006522 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264006523 arginine finger; other site 266264006524 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 266264006525 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 266264006526 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 266264006527 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 266264006528 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 266264006529 active site; other site 266264006530 dimer interface; other site 266264006531 effector binding site; other site 266264006532 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 266264006533 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264006534 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264006535 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 266264006536 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 266264006537 Domain of unknown function DUF83; Region: Cas_Cas4; cl00641 266264006538 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 266264006539 catalytic residues; other site 266264006540 transcription termination factor Rho; Provisional; Region: rho; PRK09376 266264006541 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 266264006542 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...; Region: Rho_CSD; cd04459 266264006543 RNA binding site; other site 266264006544 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...; Region: rho_factor; cd01128 266264006545 multimer interface; other site 266264006546 Walker A motif; other site 266264006547 ATP binding site; other site 266264006548 Walker B motif; other site 266264006549 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 266264006550 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 266264006551 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 266264006552 multidrug efflux protein; Reviewed; Region: PRK01766 266264006553 MatE; Region: MatE; pfam01554 266264006554 MatE; Region: MatE; pfam01554 266264006555 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 266264006556 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 266264006557 active site; other site 266264006558 HIGH motif; other site 266264006559 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 266264006560 KMSKS motif; other site 266264006561 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 266264006562 nucleophile elbow; other site 266264006563 NlpC/P60 family; Region: NLPC_P60; cl11438 266264006564 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 266264006565 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 266264006566 Walker A/P-loop; other site 266264006567 ATP binding site; other site 266264006568 Q-loop/lid; other site 266264006569 ABC transporter signature motif; other site 266264006570 Walker B; other site 266264006571 D-loop; other site 266264006572 H-loop/switch region; other site 266264006573 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264006574 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 266264006575 Walker A/P-loop; other site 266264006576 ATP binding site; other site 266264006577 Q-loop/lid; other site 266264006578 ABC transporter signature motif; other site 266264006579 Walker B; other site 266264006580 D-loop; other site 266264006581 H-loop/switch region; other site 266264006582 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...; Region: TM_PBP2; cd06261 266264006583 dimer interface; other site 266264006584 conserved gate region; other site 266264006585 putative PBP binding loops; other site 266264006586 ABC-ATPase subunit interface; other site 266264006587 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...; Region: TM_PBP2; cd06261 266264006588 dimer interface; other site 266264006589 conserved gate region; other site 266264006590 putative PBP binding loops; other site 266264006591 ABC-ATPase subunit interface; other site 266264006592 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 266264006593 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 266264006594 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 266264006595 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264006596 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 266264006597 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264006598 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006599 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 266264006600 dimerization interface; other site 266264006601 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 266264006602 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264006603 flagellin; Validated; Region: PRK08026 266264006604 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 266264006605 flagellin; Validated; Region: PRK06819 266264006606 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 266264006607 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 266264006608 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 266264006609 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 266264006610 Transglycosylase; Region: Transgly; cl07896 266264006611 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 266264006612 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264006613 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 266264006614 active site; other site 266264006615 phosphorylation site; other site 266264006616 intermolecular recognition site; other site 266264006617 dimerization interface; other site 266264006618 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...; Region: LuxR_C_like; cd06170 266264006619 DNA binding residues; other site 266264006620 dimerization interface; other site 266264006621 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...; Region: PBPb; cd00134 266264006622 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264006623 substrate binding pocket; other site 266264006624 membrane-bound complex binding site; other site 266264006625 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 266264006626 hinge residues; other site 266264006627 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 trans-...; Region: HisKA; cd00082 266264006628 dimer interface; other site 266264006629 phosphorylation site; other site 266264006630 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 266264006631 ATP binding site; other site 266264006632 Mg2+ binding site; other site 266264006633 G-X-G motif; other site 266264006634 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 266264006635 active site; other site 266264006636 phosphorylation site; other site 266264006637 intermolecular recognition site; other site 266264006638 dimerization interface; other site 266264006639 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 266264006640 Cytochrome c; Region: Cytochrom_C; cl11414 266264006641 Cytochrome c [Energy production and conversion]; Region: COG3258 266264006642 Cytochrome c; Region: Cytochrom_C; cl11414 266264006643 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264006644 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide...; Region: Piwi_piwi-like_ProArk; cd04659 266264006645 5' RNA guide strand anchoring site; other site 266264006646 active site; other site 266264006647 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264006648 KAP family P-loop domain; Region: KAP_NTPase; cl09221 266264006649 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 266264006650 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 266264006651 active site; other site 266264006652 Phage integrase family; Region: Phage_integrase; pfam00589 266264006653 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 266264006654 DNA binding site; other site 266264006655 Int/Topo IB signature motif; other site 266264006656 active site; other site 266264006657 catalytic residues; other site 266264006658 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264006659 metal binding site; other site 266264006660 active site; other site 266264006661 I-site; other site 266264006662 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 266264006663 rRNA binding site; other site 266264006664 predicted 30S ribosome binding site; other site 266264006665 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 266264006666 catalytic core; other site 266264006667 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl00357 266264006668 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 266264006669 exopolyphosphatase; Region: exo_poly_only; TIGR03706 266264006670 polyphosphate kinase; Provisional; Region: PRK05443 266264006671 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 266264006672 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 trans-...; Region: HisKA; cd00082 266264006673 dimer interface; other site 266264006674 phosphorylation site; other site 266264006675 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 266264006676 ATP binding site; other site 266264006677 Mg2+ binding site; other site 266264006678 G-X-G motif; other site 266264006679 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 266264006680 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 266264006681 active site; other site 266264006682 phosphorylation site; other site 266264006683 intermolecular recognition site; other site 266264006684 dimerization interface; other site 266264006685 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...; Region: trans_reg_C; cd00383 266264006686 DNA binding site; other site 266264006687 transcriptional regulator PhoU; Provisional; Region: PRK11115 266264006688 PhoU domain; Region: PhoU; pfam01895 266264006689 PhoU domain; Region: PhoU; pfam01895 266264006690 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 266264006691 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 266264006692 Walker A/P-loop; other site 266264006693 ATP binding site; other site 266264006694 Q-loop/lid; other site 266264006695 ABC transporter signature motif; other site 266264006696 Walker B; other site 266264006697 D-loop; other site 266264006698 H-loop/switch region; other site 266264006699 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...; Region: TM_PBP2; cd06261 266264006700 dimer interface; other site 266264006701 conserved gate region; other site 266264006702 putative PBP binding loops; other site 266264006703 ABC-ATPase subunit interface; other site 266264006704 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...; Region: TM_PBP2; cd06261 266264006705 dimer interface; other site 266264006706 conserved gate region; other site 266264006707 putative PBP binding loops; other site 266264006708 ABC-ATPase subunit interface; other site 266264006709 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 266264006710 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 266264006711 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 UDP-N-...; Region: GlmM; cd05802 266264006712 active site; other site 266264006713 substrate binding site; other site 266264006714 metal binding site; other site 266264006715 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 266264006716 substrate binding pocket; other site 266264006717 dimer interface; other site 266264006718 inhibitor binding site; other site 266264006719 FtsH Extracellular; Region: FtsH_ext; pfam06480 266264006720 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 266264006721 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...; Region: AAA; cd00009 266264006722 Walker A motif; other site 266264006723 ATP binding site; other site 266264006724 Walker B motif; other site 266264006725 arginine finger; other site 266264006726 Peptidase family M41; Region: Peptidase_M41; pfam01434 266264006727 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; cl12011 266264006728 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 266264006729 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 266264006730 domain; Region: GreA_GreB_N; pfam03449 266264006731 C-term; Region: GreA_GreB; pfam01272 266264006732 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 266264006733 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 266264006734 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264006735 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 266264006736 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 266264006737 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264006738 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 266264006739 IMP binding site; other site 266264006740 dimer interface; other site 266264006741 interdomain contacts; other site 266264006742 partial ornithine binding site; other site 266264006743 LysE type translocator; Region: LysE; cl00565 266264006744 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 266264006745 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 266264006746 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 266264006747 catalytic site; other site 266264006748 subunit interface; other site 266264006749 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 266264006750 homotrimer interaction site; other site 266264006751 putative active site; other site 266264006752 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...; Region: 4HBT; cd00586 266264006753 active site; other site 266264006754 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 266264006755 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264006756 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264006757 isovaleryl-CoA dehydrogenase; Region: PLN02519 266264006758 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264006759 active site; other site 266264006760 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264006761 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 266264006762 substrate binding site; other site 266264006763 oxyanion hole (OAH) forming residues; other site 266264006764 trimer interface; other site 266264006765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264006766 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264006767 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 266264006768 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 266264006769 active site; other site 266264006770 FMN binding site; other site 266264006771 substrate binding site; other site 266264006772 homotetramer interface; other site 266264006773 catalytic residue; other site 266264006774 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 266264006775 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 266264006776 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264006777 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; cl00455 266264006778 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 266264006779 MLTD_N; Region: MLTD_N; pfam06474 266264006780 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 266264006781 N-acetyl-D-glucosamine binding site; other site 266264006782 catalytic residue; other site 266264006783 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 266264006784 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 266264006785 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 266264006786 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264006787 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; cl12011 266264006788 RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack...; Region: RnaseH; cd06222 266264006789 RNA/DNA hybrid binding site; other site 266264006790 Active site; other site 266264006791 Proteobacterial; Region: dnaQ_proteo; TIGR01406 266264006792 This subfamily is composed of the epsilon subunit of Escherichia coli DNA polymerase III (polIII) and similar proteins. PolIII is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. It is a holoenzyme complex of ten...; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 266264006793 active site; other site 266264006794 substrate binding site; other site 266264006795 catalytic site; other site 266264006796 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 266264006797 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 266264006798 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264006799 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; cl11391 266264006800 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 266264006801 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 266264006802 Ligand Binding Site; other site 266264006803 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 266264006804 Ligand Binding Site; other site 266264006805 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...; Region: BluB; cd02145 266264006806 putative FMN binding site; other site 266264006807 Putative ParB-like nuclease; Region: ParBc_2; cl01772 266264006808 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 266264006809 active site residue; other site 266264006810 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative...; Region: 4RHOD_Repeat_2; cd01533 266264006811 active site residue; other site 266264006812 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 266264006813 active site residue; other site 266264006814 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the...; Region: 4RHOD_Repeat_4; cd01535 266264006815 active site residue; other site 266264006816 Cysteine dioxygenase type I; Region: CDO_I; cl02350 266264006817 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264006818 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264006819 active site; other site 266264006820 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 266264006821 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 266264006822 dimer interface; other site 266264006823 active site; other site 266264006824 non-prolyl cis peptide bond; other site 266264006825 insertion regions; other site 266264006826 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 266264006827 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...; Region: PBPb; cl11400 266264006828 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...; Region: TM_PBP2; cd06261 266264006829 dimer interface; other site 266264006830 conserved gate region; other site 266264006831 putative PBP binding loops; other site 266264006832 ABC-ATPase subunit interface; other site 266264006833 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 266264006834 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 266264006835 Walker A/P-loop; other site 266264006836 ATP binding site; other site 266264006837 Q-loop/lid; other site 266264006838 ABC transporter signature motif; other site 266264006839 Walker B; other site 266264006840 D-loop; other site 266264006841 H-loop/switch region; other site 266264006842 Cytochrome c; Region: Cytochrom_C; cl11414 266264006843 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 266264006844 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 266264006845 putative active site; other site 266264006846 Isochorismatase family; Region: Isochorismatase; pfam00857 266264006847 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 266264006848 catalytic triad; other site 266264006849 conserved cis-peptide bond; other site 266264006850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264006851 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006852 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 266264006853 dimerization interface; other site 266264006854 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264006855 PAS domain S-box; Region: sensory_box; TIGR00229 266264006856 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 266264006857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264006858 metal binding site; other site 266264006859 active site; other site 266264006860 I-site; other site 266264006861 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 266264006862 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 266264006863 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 266264006864 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...; Region: TM_PBP2; cd06261 266264006865 dimer interface; other site 266264006866 conserved gate region; other site 266264006867 putative PBP binding loops; other site 266264006868 ABC-ATPase subunit interface; other site 266264006869 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 266264006870 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...; Region: TM_PBP2; cd06261 266264006871 dimer interface; other site 266264006872 conserved gate region; other site 266264006873 putative PBP binding loops; other site 266264006874 ABC-ATPase subunit interface; other site 266264006875 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 266264006876 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 266264006877 Walker A/P-loop; other site 266264006878 ATP binding site; other site 266264006879 Q-loop/lid; other site 266264006880 ABC transporter signature motif; other site 266264006881 Walker B; other site 266264006882 D-loop; other site 266264006883 H-loop/switch region; other site 266264006884 TOBE domain; Region: TOBE_2; cl01440 266264006885 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 266264006886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264006887 Walker A/P-loop; other site 266264006888 ATP binding site; other site 266264006889 Q-loop/lid; other site 266264006890 ABC transporter signature motif; other site 266264006891 Walker B; other site 266264006892 D-loop; other site 266264006893 H-loop/switch region; other site 266264006894 TOBE domain; Region: TOBE_2; cl01440 266264006895 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 266264006896 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006897 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 266264006898 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 266264006899 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 266264006900 Formyl transferase; Region: Formyl_trans_N; cl00395 266264006901 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 266264006902 nudix motif; other site 266264006903 glycerol kinase; Provisional; Region: glpK; PRK00047 266264006904 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 266264006905 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 266264006906 glycerol-3-phosphate dehydrogenase; Region: PLN02464 266264006907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264006908 hypothetical protein; Provisional; Region: PRK09966 266264006909 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264006910 metal binding site; other site 266264006911 active site; other site 266264006912 I-site; other site 266264006913 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 266264006914 ligand binding site; other site 266264006915 cAMP phosphodiesterase; Provisional; Region: PRK11359 266264006916 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 266264006917 GAF domain; Region: GAF; cl00853 266264006918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264006919 metal binding site; other site 266264006920 active site; other site 266264006921 I-site; other site 266264006922 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 266264006923 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 D-...; Region: D-AAT_like; cd01558 266264006924 homodimer interface; other site 266264006925 substrate-cofactor binding pocket; other site 266264006926 pyridoxal 5'-phosphate binding site; other site 266264006927 Aminotransferase class IV; Region: Aminotran_4; pfam01063 266264006928 catalytic residue; other site 266264006929 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 266264006930 cellulose synthase regulator protein; Provisional; Region: PRK11114 266264006931 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 266264006932 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 266264006933 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 266264006934 binding surface; other site 266264006935 TPR motif; other site 266264006936 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 266264006937 Protein of unknown function (DUF2819); Region: DUF2819; cl11882 266264006938 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 266264006939 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 266264006940 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 266264006941 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 266264006942 DXD motif; other site 266264006943 PilZ domain; Region: PilZ; cl01260 266264006944 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 266264006945 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain...; Region: CBS_pair_GGDEF_assoc; cd04598 266264006946 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 266264006947 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 266264006948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264006949 metal binding site; other site 266264006950 active site; other site 266264006951 I-site; other site 266264006952 DNA packaging protein UL33; Provisional; Region: PHA03228 266264006953 flagellar capping protein; Reviewed; Region: fliD; PRK08032 266264006954 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 266264006955 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 266264006956 Transposase, Mutator family; Region: Transposase_mut; pfam00872 266264006957 MULE transposase domain; Region: MULE; pfam10551 266264006958 Sodium:solute symporter family; Region: SSF; cl00456 266264006959 Sodium:solute symporter family; Region: SSF; cl00456 266264006960 acetyl-CoA synthetase; Provisional; Region: PRK00174 266264006961 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 266264006962 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264006963 EamA-like transporter family; Region: EamA; cl01037 266264006964 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 266264006965 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 266264006966 Fumarase C-terminus; Region: Fumerase_C; cl00795 266264006967 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 266264006968 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...; Region: AAA; cd00009 266264006969 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 266264006970 Walker A motif; other site 266264006971 ATP binding site; other site 266264006972 Walker B motif; other site 266264006973 arginine finger; other site 266264006974 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...; Region: AAA; cd00009 266264006975 Walker A motif; other site 266264006976 ATP binding site; other site 266264006977 Walker B motif; other site 266264006978 arginine finger; other site 266264006979 Gram-negative bacterial tonB protein; Region: TonB; cl10048 266264006980 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 266264006981 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 266264006982 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 266264006983 Hemin uptake protein hemP; Region: hemP; cl10043 266264006984 Domain of unknown function (DUF336); Region: DUF336; cl01249 266264006985 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 266264006986 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 266264006987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264006988 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 266264006989 putative dimerization interface; other site 266264006990 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 266264006991 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 266264006992 Domain of unknown function (DUF305); Region: DUF305; pfam03713 266264006993 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl01302 266264006994 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 266264006995 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...; Region: ParA; cd02042 266264006996 Magnesium ion binding site; other site 266264006997 ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 266264006998 ParB-like nuclease domain; Region: ParBc; cl02129 266264006999 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 266264007000 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 266264007001 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 266264007002 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 266264007003 dimer interface; other site 266264007004 ssDNA binding site; other site 266264007005 tetramer (dimer of dimers) interface; other site 266264007006 DNA topoisomerase III; Validated; Region: PRK08174 266264007007 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 266264007008 active site; other site 266264007009 putative interdomain interaction site; other site 266264007010 putative metal-binding site; other site 266264007011 putative nucleotide binding site; other site 266264007012 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...; Region: TOP1Ac; cd00186 266264007013 domain I; other site 266264007014 DNA binding groove; other site 266264007015 phosphate binding site; other site 266264007016 domain II; other site 266264007017 domain III; other site 266264007018 nucleotide binding site; other site 266264007019 catalytic site; other site 266264007020 domain IV; other site 266264007021 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 266264007022 Cation efflux family; Region: Cation_efflux; cl00316 266264007023 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 266264007024 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 266264007025 DNA binding residues; other site 266264007026 dimer interface; other site 266264007027 putative metal binding site; other site 266264007028 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 266264007029 metal-binding site; other site 266264007030 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 266264007031 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 266264007032 metal-binding site; other site 266264007033 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 266264007034 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 266264007035 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264007036 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 266264007037 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 266264007038 putative transcriptional regulator MerR; Provisional; Region: PRK13752 266264007039 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 266264007040 DNA binding residues; other site 266264007041 dimer interface; other site 266264007042 mercury binding site; other site 266264007043 MerT mercuric transport protein; Region: MerT; cl03578 266264007044 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 266264007045 metal-binding site; other site 266264007046 Transposase; Region: Transposase_7; pfam01526 266264007047 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264007048 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 266264007049 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 266264007050 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 266264007051 Domain of unknown function (DUF932); Region: DUF932; cl12129 266264007052 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 266264007053 Predicted DNA modification methylase [DNA replication, recombination, and repair]; Region: COG1041 266264007054 DEAD-like helicases superfamily; Region: DEXDc; smart00487 266264007055 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 266264007056 nucleotide binding region; other site 266264007057 ATP-binding site; other site 266264007058 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 266264007059 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 266264007060 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 266264007061 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 266264007062 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264007063 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 266264007064 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264007065 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 266264007066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264007067 ABC transporter signature motif; other site 266264007068 Walker B; other site 266264007069 D-loop; other site 266264007070 H-loop/switch region; other site 266264007071 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 266264007072 active site; other site 266264007073 NTP binding site; other site 266264007074 metal binding triad; other site 266264007075 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 266264007076 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 266264007077 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...; Region: AAA; cd00009 266264007078 Walker A motif; other site 266264007079 ATP binding site; other site 266264007080 Walker B motif; other site 266264007081 arginine finger; other site 266264007082 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 266264007083 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; cl09893 266264007084 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 266264007085 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 266264007086 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 266264007087 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 266264007088 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 266264007089 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 266264007090 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 266264007091 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 266264007092 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 266264007093 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 266264007094 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 266264007095 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 266264007096 MPN+ (JAMM) motif; other site 266264007097 Zinc-binding site; other site 266264007098 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 266264007099 Protein of unknown function (DUF1527); Region: DUF1527; cl06517 266264007100 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 266264007101 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 266264007102 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 266264007103 RES domain; Region: RES; cl02411 266264007104 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 266264007105 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 266264007106 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264007107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264007108 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264007109 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 266264007110 substrate binding site; other site 266264007111 oxyanion hole (OAH) forming residues; other site 266264007112 trimer interface; other site 266264007113 DsrE/DsrF-like family; Region: DrsE; cl00672 266264007114 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264007115 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 266264007116 dimerization interface; other site 266264007117 putative DNA binding site; other site 266264007118 putative Zn2+ binding site; other site 266264007119 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 266264007120 active site residue; other site 266264007121 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264007122 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 266264007123 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 266264007124 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...; Region: Heme_Cu_Oxidase_I; cl00275 266264007125 Low-spin heme binding site; other site 266264007126 D-pathway; other site 266264007127 Putative water exit pathway; other site 266264007128 Binuclear center (active site); other site 266264007129 K-pathway; other site 266264007130 Putative proton exit pathway; other site 266264007131 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 266264007132 Cytochrome c; Region: Cytochrom_C; cl11414 266264007133 Cytochrome c; Region: Cytochrom_C; cl11414 266264007134 Cytochrome c [Energy production and conversion]; Region: COG3258 266264007135 Cytochrome c; Region: Cytochrom_C; cl11414 266264007136 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 266264007137 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 266264007138 metal-binding site; other site 266264007139 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264007140 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; cl11391 266264007141 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 266264007142 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 266264007143 putative active site; other site 266264007144 catalytic triad; other site 266264007145 putative dimer interface; other site 266264007146 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 266264007147 ATP binding site; other site 266264007148 G-X-G motif; other site 266264007149 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264007150 Integrase core domain; Region: rve; cl01316 266264007151 sensor protein QseC; Provisional; Region: PRK10337 266264007152 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 trans-...; Region: HisKA; cd00082 266264007153 dimer interface; other site 266264007154 phosphorylation site; other site 266264007155 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 266264007156 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 266264007157 active site; other site 266264007158 phosphorylation site; other site 266264007159 intermolecular recognition site; other site 266264007160 dimerization interface; other site 266264007161 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...; Region: trans_reg_C; cd00383 266264007162 DNA binding site; other site 266264007163 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 266264007164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264007165 Walker A/P-loop; other site 266264007166 ATP binding site; other site 266264007167 Q-loop/lid; other site 266264007168 ABC transporter signature motif; other site 266264007169 Walker B; other site 266264007170 D-loop; other site 266264007171 H-loop/switch region; other site 266264007172 CcmB protein; Region: CcmB; cl01016 266264007173 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 266264007174 Heme exporter protein D (CcmD); Region: CcmD; cl11475 266264007175 CcmE; Region: CcmE; cl00994 266264007176 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 266264007177 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 266264007178 catalytic residues; other site 266264007179 central insert; other site 266264007180 Cytochrome C biogenesis protein; Region: CcmH; cl01179 266264007181 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 266264007182 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 266264007183 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 266264007184 binding surface; other site 266264007185 TPR motif; other site 266264007186 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 266264007187 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 266264007188 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 266264007189 DsbD alpha interface; other site 266264007190 catalytic residues; other site 266264007191 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 266264007192 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...; Region: TlpA_like_family; cd02966 266264007193 catalytic residues; other site 266264007194 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 266264007195 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...; Region: DsbA_DsbC_DsbG; cd03020 266264007196 dimerization domain; other site 266264007197 dimer interface; other site 266264007198 catalytic residues; other site 266264007199 Sulfite exporter TauE/SafE; Region: TauE; cl00498 266264007200 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 266264007201 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 266264007202 DsrE/DsrF-like family; Region: DrsE; cl00672 266264007203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264007204 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 266264007205 dimerization interface; other site 266264007206 substrate binding pocket; other site 266264007207 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264007208 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 266264007209 dimerization interface; other site 266264007210 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 266264007211 Phage integrase family; Region: Phage_integrase; pfam00589 266264007212 active site; other site 266264007213 Int/Topo IB signature motif; other site 266264007214 Integrase core domain; Region: rve; cl01316 266264007215 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264007216 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264007217 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 266264007218 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 266264007219 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 266264007220 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 266264007221 UvrB/uvrC motif; Region: UVR; pfam02151 266264007222 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 266264007223 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 266264007224 elongation factor P; Validated; Region: PRK00529 266264007225 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 266264007226 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 266264007227 RNA binding site; other site 266264007228 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 266264007229 RNA binding site; other site 266264007230 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 266264007231 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 266264007232 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 266264007233 active site; other site 266264007234 hydrophilic channel; other site 266264007235 dimerization interface; other site 266264007236 catalytic residues; other site 266264007237 active site lid; other site 266264007238 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 266264007239 Recombination protein O N terminal; Region: RecO_N; pfam11967 266264007240 Recombination protein O C terminal; Region: RecO_C; pfam02565 266264007241 GTP-binding protein Era; Reviewed; Region: era; PRK00089 266264007242 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit,...; Region: Era; cd04163 266264007243 G1 box; other site 266264007244 GTP/Mg2+ binding site; other site 266264007245 Switch I region; other site 266264007246 G2 box; other site 266264007247 Switch II region; other site 266264007248 G3 box; other site 266264007249 G4 box; other site 266264007250 G5 box; other site 266264007251 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 266264007252 ribonuclease III; Reviewed; Region: rnc; PRK00102 266264007253 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 post-...; Region: RIBOc; cd00593 266264007254 dimerization interface; other site 266264007255 active site; other site 266264007256 metal binding site; other site 266264007257 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...; Region: DSRM; cd00048 266264007258 signal peptidase I; Provisional; Region: PRK10861 266264007259 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 266264007260 Catalytic site; other site 266264007261 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 266264007262 GTP-binding protein LepA; Provisional; Region: PRK05433 266264007263 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 266264007264 G1 box; other site 266264007265 putative GEF interaction site; other site 266264007266 GTP/Mg2+ binding site; other site 266264007267 Switch I region; other site 266264007268 G2 box; other site 266264007269 G3 box; other site 266264007270 Switch II region; other site 266264007271 G4 box; other site 266264007272 G5 box; other site 266264007273 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-...; Region: lepA_II; cd03699 266264007274 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 266264007275 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 266264007276 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 266264007277 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...; Region: Tryp_SPc; cl00149 266264007278 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 C-...; Region: PDZ_serine_protease; cd00987 266264007279 protein binding site; other site 266264007280 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 C-...; Region: PDZ_serine_protease; cd00987 266264007281 protein binding site; other site 266264007282 MucB/RseB family; Region: MucB_RseB; cl01145 266264007283 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 266264007284 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 266264007285 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264007286 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...; Region: Sigma70_r4; cd06171 266264007287 DNA binding residues; other site 266264007288 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 266264007289 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 266264007290 dimer interface; other site 266264007291 active site; other site 266264007292 Phosphopantetheine attachment site; Region: PP-binding; cl09936 266264007293 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007294 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 266264007295 Acyl transferase domain; Region: Acyl_transf_1; cl08282 266264007296 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 266264007297 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 266264007298 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 266264007299 dimer interface; other site 266264007300 active site; other site 266264007301 CoA binding pocket; other site 266264007302 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 266264007303 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 266264007304 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 266264007305 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 266264007306 active site; other site 266264007307 dimer interface; other site 266264007308 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 266264007309 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 266264007310 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 266264007311 tandem repeat interface; other site 266264007312 oligomer interface; other site 266264007313 active site residues; other site 266264007314 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)...; Region: Rieske; cd03467 266264007315 iron-sulfur cluster; other site 266264007316 [2Fe-2S] cluster binding site; other site 266264007317 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 266264007318 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 266264007319 motif II; other site 266264007320 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 266264007321 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 266264007322 RNA binding surface; other site 266264007323 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 266264007324 active site; other site 266264007325 ribonuclease E; Reviewed; Region: rne; PRK10811 266264007326 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 266264007327 homodimer interface; other site 266264007328 oligonucleotide binding site; other site 266264007329 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 266264007330 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 266264007331 FeS/SAM binding site; other site 266264007332 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 266264007333 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 266264007334 GTP binding site; other site 266264007335 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 266264007336 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 266264007337 dimer interface; other site 266264007338 putative functional site; other site 266264007339 putative MPT binding site; other site 266264007340 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 266264007341 RmuC family; Region: RmuC; pfam02646 266264007342 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 266264007343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007344 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; cl09110 266264007345 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 266264007346 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 266264007347 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 266264007348 active site; other site 266264007349 Ferredoxin [Energy production and conversion]; Region: COG1146 266264007350 4Fe-4S binding domain; Region: Fer4; pfam00037 266264007351 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 266264007352 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 266264007353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007354 Cupin domain; Region: Cupin_2; cl09118 266264007355 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264007356 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264007357 LysE type translocator; Region: LysE; cl00565 266264007358 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 266264007359 LysE type translocator; Region: LysE; cl00565 266264007360 nodulation ABC transporter NodI; Provisional; Region: PRK13537 266264007361 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 266264007362 Walker A/P-loop; other site 266264007363 ATP binding site; other site 266264007364 Q-loop/lid; other site 266264007365 ABC transporter signature motif; other site 266264007366 Walker B; other site 266264007367 D-loop; other site 266264007368 H-loop/switch region; other site 266264007369 ABC-2 type transporter; Region: ABC2_membrane; cl11417 266264007370 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 266264007371 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 266264007372 homodimer interface; other site 266264007373 substrate-cofactor binding pocket; other site 266264007374 pyridoxal 5'-phosphate binding site; other site 266264007375 catalytic residue; other site 266264007376 amidophosphoribosyltransferase; Provisional; Region: PRK09246 266264007377 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 266264007378 active site; other site 266264007379 tetramer interface; other site 266264007380 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264007381 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264007382 Colicin V production protein; Region: Colicin_V; cl00567 266264007383 Sporulation related domain; Region: SPOR; cl10051 266264007384 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 266264007385 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 266264007386 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 266264007387 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 266264007388 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264007389 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...; Region: Tryptophan_synthase_alpha; cd04724 266264007390 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 266264007391 substrate binding site; other site 266264007392 active site; other site 266264007393 catalytic residues; other site 266264007394 heterodimer interface; other site 266264007395 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; cl12011 266264007396 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 266264007397 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 266264007398 pyridoxal 5'-phosphate binding site; other site 266264007399 catalytic residue; other site 266264007400 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 266264007401 active site; other site 266264007402 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 266264007403 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)....; Region: PseudoU_synth_EcTruA; cd02570 266264007404 dimerization interface 3.5A; other site 266264007405 active site; other site 266264007406 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 266264007407 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 266264007408 FimV N-terminal domain; Region: FimV_core; TIGR03505 266264007409 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 266264007410 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 266264007411 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 266264007412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007413 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 266264007414 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 266264007415 isocitrate dehydrogenase; Validated; Region: PRK06451 266264007416 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 3...; Region: IPMI_Swivel; cd01577 266264007417 substrate binding site; other site 266264007418 Entericidin EcnA/B family; Region: Entericidin; cl02322 266264007419 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 266264007420 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 266264007421 substrate binding site; other site 266264007422 ligand binding site; other site 266264007423 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264007424 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 266264007425 Walker A/P-loop; other site 266264007426 ATP binding site; other site 266264007427 Q-loop/lid; other site 266264007428 ABC transporter signature motif; other site 266264007429 Walker B; other site 266264007430 D-loop; other site 266264007431 H-loop/switch region; other site 266264007432 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 266264007433 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 266264007434 Walker A/P-loop; other site 266264007435 ATP binding site; other site 266264007436 Q-loop/lid; other site 266264007437 ABC transporter signature motif; other site 266264007438 Walker B; other site 266264007439 D-loop; other site 266264007440 H-loop/switch region; other site 266264007441 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 266264007442 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 266264007443 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 266264007444 TM-ABC transporter signature motif; other site 266264007445 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 266264007446 TM-ABC transporter signature motif; other site 266264007447 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264007448 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 266264007449 dimerization interface; other site 266264007450 ligand binding site; other site 266264007451 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 266264007452 dimer interface; other site 266264007453 Citrate synthase; Region: Citrate_synt; pfam00285 266264007454 active site; other site 266264007455 citrylCoA binding site; other site 266264007456 NADH binding; other site 266264007457 cationic pore residues; other site 266264007458 oxalacetate/citrate binding site; other site 266264007459 coenzyme A binding site; other site 266264007460 catalytic triad; other site 266264007461 Protein of unknown function (DUF339); Region: Sdh5; cl01110 266264007462 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 266264007463 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 266264007464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007465 domain; Region: Succ_DH_flav_C; pfam02910 266264007466 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 266264007467 SdhC subunit interface; other site 266264007468 proximal heme binding site; other site 266264007469 cardiolipin binding site; other site 266264007470 Iron-sulfur protein interface; other site 266264007471 proximal quinone binding site; other site 266264007472 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 266264007473 Iron-sulfur protein interface; other site 266264007474 proximal quinone binding site; other site 266264007475 SdhD (CybS) interface; other site 266264007476 proximal heme binding site; other site 266264007477 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 266264007478 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264007479 DNA-binding site; other site 266264007480 UTRA domain; Region: UTRA; cl06649 266264007481 malate dehydrogenase; Provisional; Region: PRK05442 266264007482 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 266264007483 NAD(P) binding site; other site 266264007484 dimer interface; other site 266264007485 malate binding site; other site 266264007486 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 266264007487 aconitate hydratase; Provisional; Region: acnA; PRK12881 266264007488 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 266264007489 substrate binding site; other site 266264007490 ligand binding site; other site 266264007491 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 266264007492 substrate binding site; other site 266264007493 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 266264007494 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 266264007495 S-adenosylmethionine binding site; other site 266264007496 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 266264007497 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 266264007498 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; cl12011 266264007499 spermidine synthase; Provisional; Region: PRK04457 266264007500 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 266264007501 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 266264007502 dimerization interface; other site 266264007503 putative DNA binding site; other site 266264007504 putative Zn2+ binding site; other site 266264007505 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 266264007506 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 266264007507 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 266264007508 Glutathione S-transferase (GST) family, C-terminal alpha helical 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...; Region: GST_C_family; cl02776 266264007509 N-terminal domain interface; other site 266264007510 dimer interface; other site 266264007511 substrate binding pocket (H-site); other site 266264007512 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 266264007513 Cytochrome c; Region: Cytochrom_C; cl11414 266264007514 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 266264007515 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 266264007516 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 266264007517 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 266264007518 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 266264007519 heat shock protein 90; Provisional; Region: PRK05218 266264007520 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 266264007521 ATP binding site; other site 266264007522 Mg2+ binding site; other site 266264007523 G-X-G motif; other site 266264007524 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 266264007525 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264007526 DNA-binding site; other site 266264007527 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 266264007528 pyridoxal 5'-phosphate binding site; other site 266264007529 homodimer interface; other site 266264007530 catalytic residue; other site 266264007531 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 266264007532 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 266264007533 LysE type translocator; Region: LysE; cl00565 266264007534 EamA-like transporter family; Region: EamA; cl01037 266264007535 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 266264007536 homotrimer interaction site; other site 266264007537 putative active site; other site 266264007538 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 266264007539 pyridoxal 5'-phosphate binding site; other site 266264007540 homodimer interface; other site 266264007541 catalytic residue; other site 266264007542 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 266264007543 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 266264007544 putative C-terminal domain interface; other site 266264007545 putative GSH binding site (G-site); other site 266264007546 putative dimer interface; other site 266264007547 GST_C 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_C_2; cd03180 266264007548 putative N-terminal domain interface; other site 266264007549 putative dimer interface; other site 266264007550 putative substrate binding pocket (H-site); other site 266264007551 L-lactate permease; Provisional; Region: PRK10420 266264007552 L-lactate permease; Region: Lactate_perm; cl00701 266264007553 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 266264007554 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 266264007555 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 266264007556 Walker A/P-loop; other site 266264007557 ATP binding site; other site 266264007558 Q-loop/lid; other site 266264007559 ABC transporter signature motif; other site 266264007560 Walker B; other site 266264007561 D-loop; other site 266264007562 H-loop/switch region; other site 266264007563 Chromate transporter; Region: Chromate_transp; cl00902 266264007564 Chromate transporter; Region: Chromate_transp; cl00902 266264007565 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 266264007566 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...; Region: TOP4c; cd00187 266264007567 CAP-like domain; other site 266264007568 Active site; other site 266264007569 primary dimer interface; other site 266264007570 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 266264007571 N-acetyl-D-glucosamine binding site; other site 266264007572 catalytic residue; other site 266264007573 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 266264007574 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 266264007575 ATP binding site; other site 266264007576 Mg2+ binding site; other site 266264007577 G-X-G motif; other site 266264007578 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 266264007579 anchoring element; other site 266264007580 dimer interface; other site 266264007581 ATP binding site; other site 266264007582 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 266264007583 active site; other site 266264007584 metal binding site; other site 266264007585 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 266264007586 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264007587 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264007588 putative substrate translocation pore; other site 266264007589 ABC transporter ATPase component; Reviewed; Region: PRK11147 266264007590 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264007591 Walker A/P-loop; other site 266264007592 ATP binding site; other site 266264007593 Q-loop/lid; other site 266264007594 ABC transporter signature motif; other site 266264007595 Walker B; other site 266264007596 D-loop; other site 266264007597 H-loop/switch region; other site 266264007598 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...; Region: ABCF_EF-3; cd03221 266264007599 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 266264007600 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...; Region: LuxR_C_like; cd06170 266264007601 DNA binding residues; other site 266264007602 dimerization interface; other site 266264007603 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 266264007604 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264007605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007606 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264007607 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 266264007608 active site; other site 266264007609 catalytic site; other site 266264007610 (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 266264007611 active site; other site 266264007612 catalytic site; other site 266264007613 lipid-transfer protein; Provisional; Region: PRK08256 266264007614 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264007615 active site; other site 266264007616 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264007617 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264007618 active site; other site 266264007619 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264007620 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264007621 active site; other site 266264007622 lipid-transfer protein; Provisional; Region: PRK08256 266264007623 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264007624 active site; other site 266264007625 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264007626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007627 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 266264007628 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....; Region: LuxR_C_like; cd06170 266264007629 DNA binding residues; other site 266264007630 dimerization interface; other site 266264007631 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...; Region: PBPb; cl11400 266264007632 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264007633 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...; Region: gram_neg_porins; cd00342 266264007634 trimer interface; other site 266264007635 eyelet of channel; other site 266264007636 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 266264007637 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264007638 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...; Region: PBPb; cd00134 266264007639 substrate binding pocket; other site 266264007640 membrane-bound complex binding site; other site 266264007641 hinge residues; other site 266264007642 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 266264007643 Benzoate membrane transport protein; Region: BenE; cl09308 266264007644 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 266264007645 Fimbrial protein; Region: Fimbrial; cl01416 266264007646 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 266264007647 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264007648 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264007649 Integrase core domain; Region: rve; cl01316 266264007650 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 266264007651 insertion element IS2 transposase InsD; Reviewed; Region: PRK09409 266264007652 Integrase core domain; Region: rve; cl01316 266264007653 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; cl01116 266264007654 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 266264007655 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 266264007656 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 266264007657 catalytic residues; other site 266264007658 catalytic nucleophile; other site 266264007659 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 266264007660 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 266264007661 Int/Topo IB signature motif; other site 266264007662 active site; other site 266264007663 DNA binding site; other site 266264007664 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 266264007665 Active site; other site 266264007666 helicase 45; Provisional; Region: PTZ00424 266264007667 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 266264007668 ATP binding site; other site 266264007669 Mg++ binding site; other site 266264007670 motif III; other site 266264007671 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 266264007672 nucleotide binding region; other site 266264007673 ATP-binding site; other site 266264007674 conserved hypothetical protein TIGR03440; Region: unchr_TIGR03440 266264007675 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 266264007676 probable methyltransferase; Region: TIGR03438 266264007677 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 266264007678 Integral membrane protein TerC family; Region: TerC; cl10468 266264007679 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 266264007680 dimerization interface; other site 266264007681 active site; other site 266264007682 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 5,10...; Region: DHFR; cd00209 266264007683 folate binding site; other site 266264007684 NADP+ binding site; other site 266264007685 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl00398 266264007686 Protein of unknown function (DUF615); Region: DUF615; cl01147 266264007687 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 266264007688 MPT binding site; other site 266264007689 trimer interface; other site 266264007690 Membrane transport protein; Region: Mem_trans; cl09117 266264007691 Oligoribonuclease (Orn) is a DEDDh-type DnaQ-like 3'-5' exoribonuclease that is responsible for degrading small oligoribonucleotides to mononucleotides. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D...; Region: Orn; cd06135 266264007692 putative active site; other site 266264007693 putative substrate binding site; other site 266264007694 catalytic site; other site 266264007695 dimer interface; other site 266264007696 Peptidase family M48; Region: Peptidase_M48; cl12018 266264007697 ribosome-associated GTPase; Reviewed; Region: PRK00098 266264007698 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 266264007699 GTPase/OB domain interface; other site 266264007700 GTPase/Zn-binding domain interface; other site 266264007701 GTP/Mg2+ binding site; other site 266264007702 G4 box; other site 266264007703 G5 box; other site 266264007704 G1 box; other site 266264007705 Switch I region; other site 266264007706 G2 box; other site 266264007707 G3 box; other site 266264007708 Switch II region; other site 266264007709 CobD/Cbib protein; Region: CobD_Cbib; cl00561 266264007710 Cupin domain; Region: Cupin_2; cl09118 266264007711 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 266264007712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264007713 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 266264007714 dimerization interface; other site 266264007715 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 266264007716 active site; other site 266264007717 HIGH motif; other site 266264007718 nucleotide binding site; other site 266264007719 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 266264007720 active site; other site 266264007721 KMSKS motif; other site 266264007722 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 266264007723 DEAD-like helicases superfamily; Region: DEXDc; smart00487 266264007724 ATP binding site; other site 266264007725 Mg++ binding site; other site 266264007726 motif III; other site 266264007727 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 266264007728 nucleotide binding region; other site 266264007729 ATP-binding site; other site 266264007730 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 266264007731 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 266264007732 putative active site; other site 266264007733 putative metal binding site; other site 266264007734 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 266264007735 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...; Region: PBPb; cl11400 266264007736 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 266264007737 Coenzyme A transferase; Region: CoA_trans; cl00773 266264007738 Coenzyme A transferase; Region: CoA_trans; cl00773 266264007739 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 266264007740 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264007741 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264007742 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 266264007743 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 266264007744 C-terminal domain interface; other site 266264007745 GSH binding site (G-site); other site 266264007746 dimer interface; other site 266264007747 GST_C family, unknown subfamily 6; 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_C_6; cd03205 266264007748 putative N-terminal domain interface; other site 266264007749 putative dimer interface; other site 266264007750 putative substrate binding pocket (H-site); other site 266264007751 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 alpha-.; Region: HCP_like; cl00255 266264007752 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 266264007753 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 266264007754 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 266264007755 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 266264007756 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264007757 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 266264007758 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 266264007759 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 266264007760 homodimer interface; other site 266264007761 active site; other site 266264007762 TDP-binding site; other site 266264007763 acceptor substrate-binding pocket; other site 266264007764 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...; Region: PBPb; cl11400 266264007765 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264007766 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 266264007767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007768 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264007769 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264007770 active site; other site 266264007771 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264007772 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264007773 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264007774 DUF35 OB-fold domain; Region: DUF35; pfam01796 266264007775 lipid-transfer protein; Provisional; Region: PRK08256 266264007776 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264007777 active site; other site 266264007778 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264007779 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 266264007780 substrate binding site; other site 266264007781 oxyanion hole (OAH) forming residues; other site 266264007782 trimer interface; other site 266264007783 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264007784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007785 putative enoyl-(acyl-carrier-protein) reductase II; Region: enACPred_II; TIGR03151 266264007786 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...; Region: NPD_like; cd04730 266264007787 FMN binding site; other site 266264007788 substrate binding site; other site 266264007789 putative catalytic residue; other site 266264007790 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 266264007791 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 266264007792 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 266264007793 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 266264007794 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264007795 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 266264007796 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...; Region: Sigma70_r4; cd06171 266264007797 DNA binding residues; other site 266264007798 DNA primase; Validated; Region: dnaG; PRK05667 266264007799 CHC2 zinc finger; Region: zf-CHC2; cl02597 266264007800 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 266264007801 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 266264007802 active site; other site 266264007803 metal binding site; other site 266264007804 interdomain interaction site; other site 266264007805 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 266264007806 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 266264007807 GatB domain; Region: GatB_Yqey; cl11497 266264007808 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 266264007809 flavoprotein, HI0933 family; Region: TIGR00275 266264007810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007811 putative DNA-binding/iron metalloprotein/AP endonuclease; Reviewed; Region: PRK09604 266264007812 PhoD-like phosphatase; Region: PhoD; pfam09423 266264007813 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 266264007814 putative active site; other site 266264007815 putative metal binding site; other site 266264007816 PhoD-like phosphatase; Region: PhoD; pfam09423 266264007817 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 266264007818 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 266264007819 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 266264007820 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 266264007821 TPP-binding site; other site 266264007822 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 266264007823 PYR/PP interface; other site 266264007824 dimer interface; other site 266264007825 TPP binding site; other site 266264007826 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 266264007827 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 266264007828 substrate binding pocket; other site 266264007829 chain length determination region; other site 266264007830 substrate-Mg2+ binding site; other site 266264007831 catalytic residues; other site 266264007832 aspartate-rich region 1; other site 266264007833 active site lid residues; other site 266264007834 aspartate-rich region 2; other site 266264007835 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 266264007836 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 266264007837 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 266264007838 [2Fe-2S] cluster binding site; other site 266264007839 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 266264007840 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 266264007841 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...; Region: TST_Repeat_1; cd01448 266264007842 active site residue; other site 266264007843 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 266264007844 active site residue; other site 266264007845 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 266264007846 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 266264007847 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 266264007848 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 266264007849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264007850 K+-transporting ATPase, c chain; Region: KdpC; cl00944 266264007851 DNA polymerase I; Provisional; Region: PRK05755 266264007852 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 266264007853 metal binding site I; other site 266264007854 putative ssDNA interaction site; other site 266264007855 metal binding site II; other site 266264007856 The 3'-5' exonuclease domain of DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. E.coli-like Polymerase I (pol I), a subgroup of family-A DNA polymerases, contains a DEDDy-type DnaQ-like 3'-...; Region: DNA_polA_I_Ecoli_like_exo; cd06139 266264007857 active site; other site 266264007858 catalytic site; other site 266264007859 substrate binding site; other site 266264007860 DNA polymerase family A, 5'-3' polymerase domain. Family A polymerase (polymerase I) functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication. DNA-dependent DNA polymerases can be classified into six main groups...; Region: DNA_pol_A; cd06444 266264007861 active site; other site 266264007862 DNA binding site; other site 266264007863 catalytic site; other site 266264007864 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 266264007865 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 266264007866 Phosphotransferase enzyme family; Region: APH; pfam01636 266264007867 putative active site; other site 266264007868 putative substrate binding site; other site 266264007869 ATP binding site; other site 266264007870 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 266264007871 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264007872 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 266264007873 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 266264007874 active site; other site 266264007875 HIGH motif; other site 266264007876 nucleotide binding site; other site 266264007877 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 266264007878 active site; other site 266264007879 KMSKS motif; other site 266264007880 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 266264007881 tRNA binding surface; other site 266264007882 anticodon binding site; other site 266264007883 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 266264007884 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 266264007885 active site; other site 266264007886 tetramer interface; other site 266264007887 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 266264007888 putative active site pocket; other site 266264007889 dimerization interface; other site 266264007890 putative catalytic residue; other site 266264007891 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 266264007892 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 266264007893 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 266264007894 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264007895 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 266264007896 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 266264007897 cation-binding hemerythrin HHE family protein; Provisional; Region: PRK01917 266264007898 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; cl11605 266264007899 octamerization interface; other site 266264007900 diferric-oxygen binding site; other site 266264007901 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264007902 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 266264007903 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...; Region: YgdL_like; cd00755 266264007904 putative ATP binding site; other site 266264007905 putative substrate interface; other site 266264007906 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 266264007907 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264007908 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264007909 putative substrate translocation pore; other site 266264007910 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 266264007911 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 266264007912 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 266264007913 Cyclopropane-fatty-acyl-phospholipid synthase; Region: CMAS; pfam02353 266264007914 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 266264007915 S-adenosylmethionine binding site; other site 266264007916 Protein of unknown function DUF72; Region: DUF72; cl00777 266264007917 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 266264007918 Flavin Reductases; Region: FlaRed; cl00801 266264007919 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 266264007920 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264007921 kynureninase; Region: kynureninase; TIGR01814 266264007922 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 266264007923 pyridoxal 5'-phosphate binding pocket; other site 266264007924 catalytic residue; other site 266264007925 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 266264007926 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264007927 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264007928 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 266264007929 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264007930 FAD binding site; other site 266264007931 substrate binding pocket; other site 266264007932 catalytic base; other site 266264007933 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 266264007934 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 266264007935 dimer interface; other site 266264007936 decamer (pentamer of dimers) interface; other site 266264007937 catalytic triad; other site 266264007938 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 266264007939 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 266264007940 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 266264007941 D5 N terminal like; Region: D5_N; pfam08706 266264007942 C-terminal domain; Region: primase_Cterm; TIGR01613 266264007943 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 266264007944 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...; Region: AAA; cd00009 266264007945 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 266264007946 Walker A motif; other site 266264007947 ATP binding site; other site 266264007948 Walker B motif; other site 266264007949 arginine finger; other site 266264007950 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; cl12011 266264007951 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; cl12011 266264007952 YeeE/YedE family (DUF395); Region: DUF395; cl01018 266264007953 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 266264007954 Ligand Binding Site; other site 266264007955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 266264007956 Bul1 N terminus; Region: Bul1_N; pfam04425 266264007957 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 266264007958 ligand binding site; other site 266264007959 translocation protein TolB; Provisional; Region: tolB; PRK02889 266264007960 TolB amino-terminal domain; Region: TolB_N; pfam04052 266264007961 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 266264007962 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 266264007963 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 266264007964 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 266264007965 Gram-negative bacterial tonB protein; Region: TonB; cl10048 266264007966 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 266264007967 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 266264007968 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...; Region: 4HBT; cd00586 266264007969 active site; other site 266264007970 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...; Region: SHMT; cd00378 266264007971 dimer interface; other site 266264007972 glycine-pyridoxal phosphate binding site; other site 266264007973 active site; other site 266264007974 folate binding site; other site 266264007975 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 266264007976 ATP cone domain; Region: ATP-cone; pfam03477 266264007977 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 266264007978 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 266264007979 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 266264007980 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 266264007981 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 266264007982 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 266264007983 catalytic motif; other site 266264007984 Zn binding site; other site 266264007985 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 5,10-...; Region: DHFR; cl00161 266264007986 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 266264007987 Lumazine binding domain; Region: Lum_binding; pfam00677 266264007988 Lumazine binding domain; Region: Lum_binding; pfam00677 266264007989 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 266264007990 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264007991 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 266264007992 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 266264007993 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 266264007994 dimerization interface; other site 266264007995 active site; other site 266264007996 6,7-dimethyl-8-ribityllumazine synthase; Region: DMRL_synthase; cl00317 266264007997 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 rRNA-...; Region: NusB_Sun; cl00223 266264007998 putative RNA binding site; other site 266264007999 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 266264008000 aspartate aminotransferase; Provisional; Region: PRK06108 266264008001 pyridoxal 5'-phosphate binding site; other site 266264008002 homodimer interface; other site 266264008003 catalytic residue; other site 266264008004 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 266264008005 N-acetyl-D-glucosamine binding site; other site 266264008006 catalytic residue; other site 266264008007 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 266264008008 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 266264008009 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 266264008010 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264008011 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)...; Region: GST_N_1; cd03043 266264008012 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 266264008013 putative C-terminal domain interface; other site 266264008014 putative GSH binding site (G-site); other site 266264008015 putative dimer interface; other site 266264008016 GST_C family, unknown subfamily 3; composed of uncharacterized 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 endogenous...; Region: GST_C_3; cd03194 266264008017 putative N-terminal domain interface; other site 266264008018 putative dimer interface; other site 266264008019 putative substrate binding pocket (H-site); other site 266264008020 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 266264008021 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 266264008022 Aldose 1-epimerase; Region: Aldose_epim; cl00476 266264008023 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; cl12011 266264008024 Bacitracin resistance protein BacA; Region: BacA; cl00858 266264008025 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 266264008026 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264008027 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264008028 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 266264008029 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 266264008030 S-adenosylmethionine binding site; other site 266264008031 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 266264008032 active site residue; other site 266264008033 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 266264008034 Outer membrane efflux protein; Region: OEP; pfam02321 266264008035 Outer membrane efflux protein; Region: OEP; pfam02321 266264008036 O-Antigen ligase; Region: Wzy_C; cl04850 266264008037 META domain; Region: META; cl01245 266264008038 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 266264008039 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 266264008040 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 266264008041 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 266264008042 putative active site; other site 266264008043 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 266264008044 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 266264008045 active site; other site 266264008046 substrate binding site; other site 266264008047 metal binding site; other site 266264008048 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 266264008049 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 266264008050 putative ADP-binding pocket; other site 266264008051 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 266264008052 Bacterial sugar transferase; Region: Bac_transf; cl00939 266264008053 This family is most closely related to the GT1 family of glycosyltransferases and is named after WbdM in Escherichia coli. In general glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor...; Region: GT1_WbdM_like; cd04951 266264008054 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 266264008055 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 266264008056 putative ADP-binding pocket; other site 266264008057 Chain length determinant protein; Region: Wzz; cl01623 266264008058 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 266264008059 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 266264008060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008061 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 266264008062 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 266264008063 inhibitor-cofactor binding pocket; other site 266264008064 pyridoxal 5'-phosphate binding site; other site 266264008065 catalytic residue; other site 266264008066 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 266264008067 putative trimer interface; other site 266264008068 putative CoA binding site; other site 266264008069 Bacterial sugar transferase; Region: Bac_transf; cl00939 266264008070 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 266264008071 putative ADP-binding pocket; other site 266264008072 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 266264008073 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 266264008074 active site; other site 266264008075 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 266264008076 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 266264008077 Cupin domain; Region: Cupin_2; cl09118 266264008078 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 266264008079 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 266264008080 substrate binding site; other site 266264008081 tetramer interface; other site 266264008082 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 266264008083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008084 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 266264008085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008086 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 266264008087 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 266264008088 active site; other site 266264008089 metal binding site; other site 266264008090 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 266264008091 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 266264008092 putative acyl-acceptor binding pocket; other site 266264008093 dihydroorotase; Provisional; Region: PRK07627 266264008094 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...; Region: metallo-dependent_hydrolases; cl00281 266264008095 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 266264008096 active site; other site 266264008097 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 266264008098 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 266264008099 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 266264008100 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264008101 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 266264008102 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 266264008103 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 266264008104 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 266264008105 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 266264008106 active site; other site 266264008107 uracil binding; other site 266264008108 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 266264008109 DNA photolyase; Region: DNA_photolyase; pfam00875 266264008110 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 266264008111 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 266264008112 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 266264008113 HemY protein N-terminus; Region: HemY_N; pfam07219 266264008114 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...; Region: HemD; cd06578 266264008115 active site; other site 266264008116 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 266264008117 HemX; Region: HemX; pfam04375 266264008118 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 266264008119 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 266264008120 domain interfaces; other site 266264008121 active site; other site 266264008122 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 266264008123 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 266264008124 argininosuccinate lyase; Provisional; Region: PRK00855 266264008125 Argininosuccinate lyase (argininosuccinase, ASAL). This group contains proteins similar to ASAL, a member of the Lyase class I family. Members of this family for the most part catalyze similar beta-elimination reactions in which a C-N or C-O bond is...; Region: Argininosuccinate_lyase; cd01359 266264008126 active sites; other site 266264008127 tetramer interface; other site 266264008128 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 266264008129 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; cl09110 266264008130 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 266264008131 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 266264008132 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 266264008133 pyridoxal 5'-phosphate binding pocket; other site 266264008134 catalytic residue; other site 266264008135 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 266264008136 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 266264008137 trimer interface; other site 266264008138 active site; other site 266264008139 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 266264008140 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 266264008141 E-class dimer interface; other site 266264008142 P-class dimer interface; other site 266264008143 active site; other site 266264008144 Cu2+ binding site; other site 266264008145 Zn2+ binding site; other site 266264008146 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 266264008147 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 266264008148 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 266264008149 [4Fe-4S] binding site; other site 266264008150 molybdopterin cofactor binding site; other site 266264008151 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 266264008152 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 266264008153 molybdopterin cofactor binding site; other site 266264008154 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 266264008155 DMSO reductase family type II enzyme, iron-sulfur subunit; Region: DMSO_red_II_bet; TIGR03478 266264008156 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 266264008157 4Fe-4S binding domain; Region: Fer4; pfam00037 266264008158 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 266264008159 hydrogenase 4 subunit H; Validated; Region: PRK08222 266264008160 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 alpha-.; Region: HCP_like; cl00255 266264008161 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 266264008162 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 266264008163 putative ATPase; Provisional; Region: PRK11670 266264008164 Domain of unknown function DUF59; Region: DUF59; cl00941 266264008165 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 266264008166 Walker A motif; other site 266264008167 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 266264008168 ligand binding site; other site 266264008169 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 266264008170 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 266264008171 active site; other site 266264008172 HIGH motif; other site 266264008173 KMSKS motif; other site 266264008174 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 266264008175 tRNA binding surface; other site 266264008176 anticodon binding site; other site 266264008177 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 266264008178 dimer interface; other site 266264008179 putative tRNA-binding site; other site 266264008180 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 266264008181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 266264008182 Family of unknown function (DUF490); Region: DUF490; pfam04357 266264008183 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 266264008184 Surface antigen; Region: Bac_surface_Ag; cl03097 266264008185 ScpA/B protein; Region: ScpA_ScpB; cl00598 266264008186 pantoate--beta-alanine ligase; Region: panC; TIGR00018 266264008187 Pantoate-beta-alanine ligase; Region: PanC; cd00560 266264008188 active site; other site 266264008189 ATP-binding site; other site 266264008190 pantoate-binding site; other site 266264008191 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 266264008192 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 266264008193 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 266264008194 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 266264008195 Coenzyme A binding pocket; other site 266264008196 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 266264008197 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...; Region: ParA; cd02042 266264008198 P-loop; other site 266264008199 Magnesium ion binding site; other site 266264008200 cobyric acid synthase; Provisional; Region: PRK00784 266264008201 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264008202 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264008203 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 266264008204 catalytic triad; other site 266264008205 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 266264008206 homotrimer interface; other site 266264008207 Walker A motif; other site 266264008208 GTP binding site; other site 266264008209 Walker B motif; other site 266264008210 CobD/Cbib protein; Region: CobD_Cbib; cl00561 266264008211 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 266264008212 pyridoxal 5'-phosphate binding site; other site 266264008213 homodimer interface; other site 266264008214 catalytic residue; other site 266264008215 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...; Region: BtuF; cd01144 266264008216 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 266264008217 cobalamin binding residues; other site 266264008218 putative BtuC binding residues; other site 266264008219 dimer interface; other site 266264008220 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 266264008221 catalytic core; other site 266264008222 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 266264008223 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 266264008224 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 266264008225 active site pocket; other site 266264008226 putative dimer interface; other site 266264008227 putative cataytic base; other site 266264008228 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 266264008229 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 266264008230 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...; Region: CobA_CobO_BtuR; cd00561 266264008231 homodimer interface; other site 266264008232 Walker A motif; other site 266264008233 ATP binding site; other site 266264008234 hydroxycobalamin binding site; other site 266264008235 Walker B motif; other site 266264008236 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 266264008237 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 266264008238 Walker A/P-loop; other site 266264008239 ATP binding site; other site 266264008240 Q-loop/lid; other site 266264008241 ABC transporter signature motif; other site 266264008242 Walker B; other site 266264008243 D-loop; other site 266264008244 H-loop/switch region; other site 266264008245 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...; Region: TM_ABC_iron-siderophores_like; cd06550 266264008246 ABC-ATPase subunit interface; other site 266264008247 dimer interface; other site 266264008248 putative PBP binding regions; other site 266264008249 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 266264008250 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 266264008251 N-terminal plug; other site 266264008252 ligand-binding site; other site 266264008253 Cell division protein ZapA; Region: ZapA; cl01146 266264008254 Protein of unknown function DUF55; Region: DUF55; cl00728 266264008255 Protein of unknown function (DUF541); Region: SIMPL; cl01077 266264008256 malonyl-CoA synthase; Validated; Region: PRK07514 266264008257 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264008258 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264008259 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 266264008260 substrate binding site; other site 266264008261 oxyanion hole (OAH) forming residues; other site 266264008262 trimer interface; other site 266264008263 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...; Region: PBPb; cl11400 266264008264 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 266264008265 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264008266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264008267 DNA-binding site; other site 266264008268 FCD domain; Region: FCD; cl11656 266264008269 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 266264008270 Peptidase family M48; Region: Peptidase_M48; cl12018 266264008271 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 266264008272 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 266264008273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264008274 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 266264008275 putative dimerization interface; other site 266264008276 putative substrate binding pocket; other site 266264008277 Dehydratase family; Region: ILVD_EDD; cl00340 266264008278 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 266264008279 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 266264008280 leucyl aminopeptidase; Provisional; Region: PRK00913 266264008281 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...; Region: Peptidase_M17; cd00433 266264008282 interface (dimer of trimers); other site 266264008283 Substrate-binding/catalytic site; other site 266264008284 Zn-binding sites; other site 266264008285 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 266264008286 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 266264008287 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...; Region: CbiX_SirB_N; cd03416 266264008288 putative active site; other site 266264008289 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 266264008290 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 266264008291 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 266264008292 CysD dimerization site; other site 266264008293 G1 box; other site 266264008294 putative GEF interaction site; other site 266264008295 GTP/Mg2+ binding site; other site 266264008296 Switch I region; other site 266264008297 G2 box; other site 266264008298 G3 box; other site 266264008299 Switch II region; other site 266264008300 G4 box; other site 266264008301 G5 box; other site 266264008302 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...; Region: CysN_NodQ_II; cd03695 266264008303 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...; Region: CysN_NoDQ_III; cd04095 266264008304 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 266264008305 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 266264008306 Active Sites; other site 266264008307 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 266264008308 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 266264008309 Active Sites; other site 266264008310 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 266264008311 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 266264008312 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 266264008313 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 266264008314 Sulfite exporter TauE/SafE; Region: TauE; cl00498 266264008315 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 266264008316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264008317 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 266264008318 substrate binding site; other site 266264008319 dimerization interface; other site 266264008320 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 266264008321 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 266264008322 S-adenosylmethionine binding site; other site 266264008323 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264008324 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 266264008325 putative ligand binding site; other site 266264008326 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 266264008327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008328 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 266264008329 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 266264008330 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; cl12011 266264008331 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264008332 Walker A/P-loop; other site 266264008333 ATP binding site; other site 266264008334 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264008335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264008336 Integrase core domain; Region: rve; cl01316 266264008337 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 266264008338 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264008339 Integrase core domain; Region: rve; cl01316 266264008340 conserved hypothetical protein TIGR02680; Region: TIGR02680 266264008341 Domain of unknown function DUF29; Region: DUF29; pfam01724 266264008342 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264008343 Drosophila exonuclease snipper (snp), and similar proteins from eukaryotes and bacteria. These are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved...; Region: ERI-1_3'hExo_like; cd06133 266264008344 active site; other site 266264008345 substrate binding site; other site 266264008346 catalytic site; other site 266264008347 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 266264008348 DNA binding site; other site 266264008349 Int/Topo IB signature motif; other site 266264008350 active site; other site 266264008351 Peptidase family M48; Region: Peptidase_M48; cl12018 266264008352 N-formylglutamate amidohydrolase; Region: FGase; cl01522 266264008353 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 266264008354 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 266264008355 active site; other site 266264008356 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 266264008357 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 266264008358 active site; other site 266264008359 HutD; Region: HutD; cl01532 266264008360 urocanate hydratase; Provisional; Region: PRK05414 266264008361 urocanate hydratase; Region: hutU; TIGR01228 266264008362 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL) and. PAL and HAL are members of the Lyase class I_like superfamily of enzymes that, catalyze similar beta-elimination reactions and are active as homotetramers. The four active sites...; Region: PAL-HAL; cd00332 266264008363 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 266264008364 active sites; other site 266264008365 tetramer interface; other site 266264008366 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 266264008367 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264008368 DNA-binding site; other site 266264008369 UTRA domain; Region: UTRA; cl06649 266264008370 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 266264008371 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 266264008372 Walker A/P-loop; other site 266264008373 ATP binding site; other site 266264008374 Q-loop/lid; other site 266264008375 ABC transporter signature motif; other site 266264008376 Walker B; other site 266264008377 D-loop; other site 266264008378 H-loop/switch region; other site 266264008379 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...; Region: TM_PBP2; cd06261 266264008380 dimer interface; other site 266264008381 conserved gate region; other site 266264008382 putative PBP binding loops; other site 266264008383 ABC-ATPase subunit interface; other site 266264008384 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 266264008385 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...; Region: PBPb; cd00134 266264008386 substrate binding pocket; other site 266264008387 membrane-bound complex binding site; other site 266264008388 hinge residues; other site 266264008389 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008390 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 266264008391 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 266264008392 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 266264008393 catalytic loop; other site 266264008394 iron binding site; other site 266264008395 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,...; Region: flavin_oxioreductase; cd06189 266264008396 FAD binding pocket; other site 266264008397 FAD binding motif; other site 266264008398 phosphate binding motif; other site 266264008399 beta-alpha-beta structure motif; other site 266264008400 NAD binding pocket; other site 266264008401 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 266264008402 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 266264008403 inhibitor-cofactor binding pocket; other site 266264008404 pyridoxal 5'-phosphate binding site; other site 266264008405 catalytic residue; other site 266264008406 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264008407 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 266264008408 Walker A/P-loop; other site 266264008409 ATP binding site; other site 266264008410 Q-loop/lid; other site 266264008411 ABC transporter signature motif; other site 266264008412 Walker B; other site 266264008413 D-loop; other site 266264008414 H-loop/switch region; other site 266264008415 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 266264008416 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 266264008417 Walker A/P-loop; other site 266264008418 ATP binding site; other site 266264008419 Q-loop/lid; other site 266264008420 ABC transporter signature motif; other site 266264008421 Walker B; other site 266264008422 D-loop; other site 266264008423 H-loop/switch region; other site 266264008424 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 266264008425 TM-ABC transporter signature motif; other site 266264008426 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 266264008427 TM-ABC transporter signature motif; other site 266264008428 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264008429 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 266264008430 dimerization interface; other site 266264008431 ligand binding site; other site 266264008432 LytB protein; Region: LYTB; cl00507 266264008433 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 266264008434 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 266264008435 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 266264008436 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 266264008437 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 266264008438 L-aspartate oxidase; Provisional; Region: PRK09077 266264008439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008440 domain; Region: Succ_DH_flav_C; pfam02910 266264008441 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 266264008442 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 5-...; Region: QPRTase; cd01572 266264008443 dimerization interface; other site 266264008444 active site; other site 266264008445 Quinolinate synthetase A protein; Region: NadA; cl00420 266264008446 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 266264008447 Di-iron ligands; other site 266264008448 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 266264008449 Mechanosensitive ion channel; Region: MS_channel; pfam00924 266264008450 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 266264008451 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; cl12011 266264008452 Formyl transferase; Region: Formyl_trans_N; cl00395 266264008453 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 266264008454 Transposase DDE domain; Region: Transposase_11; pfam01609 266264008455 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264008456 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 266264008457 active site; other site 266264008458 phosphorylation site; other site 266264008459 intermolecular recognition site; other site 266264008460 dimerization interface; other site 266264008461 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...; Region: LuxR_C_like; cd06170 266264008462 DNA binding residues; other site 266264008463 dimerization interface; other site 266264008464 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 trans-...; Region: HisKA; cl00080 266264008465 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 266264008466 ATP binding site; other site 266264008467 Mg2+ binding site; other site 266264008468 G-X-G motif; other site 266264008469 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 266264008470 active site; other site 266264008471 phosphorylation site; other site 266264008472 intermolecular recognition site; other site 266264008473 dimerization interface; other site 266264008474 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 266264008475 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 266264008476 putative active site; other site 266264008477 putative NTP binding site; other site 266264008478 putative nucleic acid binding site; other site 266264008479 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 266264008480 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins,...; Region: HNHc; cd00085 266264008481 active site; other site 266264008482 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 266264008483 riboflavin kinase, C-terminal domain of the bifunctional riboflavin biosynthesis protein; Region: Flavokinase_C; cd02064 266264008484 active site; other site 266264008485 Riboflavin kinase; Region: Flavokinase; pfam01687 266264008486 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 266264008487 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 266264008488 active site; other site 266264008489 HIGH motif; other site 266264008490 nucleotide binding site; other site 266264008491 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 266264008492 active site; other site 266264008493 KMSKS motif; other site 266264008494 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 266264008495 tRNA binding surface; other site 266264008496 anticodon binding site; other site 266264008497 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 266264008498 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 266264008499 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 266264008500 Flavoprotein; Region: Flavoprotein; cl08021 266264008501 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 266264008502 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 266264008503 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 266264008504 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 266264008505 trimer interface; other site 266264008506 active site; other site 266264008507 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264008508 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...; Region: PBPb; cl11400 266264008509 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 266264008510 Clp amino terminal domain; Region: Clp_N; pfam02861 266264008511 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...; Region: AAA; cd00009 266264008512 Walker A motif; other site 266264008513 ATP binding site; other site 266264008514 Walker B motif; other site 266264008515 arginine finger; other site 266264008516 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...; Region: AAA; cd00009 266264008517 Walker A motif; other site 266264008518 ATP binding site; other site 266264008519 Walker B motif; other site 266264008520 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 266264008521 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 266264008522 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 266264008523 DNA-binding site; other site 266264008524 RNA-binding motif; other site 266264008525 isocitrate dehydrogenase; Validated; Region: PRK07362 266264008526 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 266264008527 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 266264008528 pseudouridine synthase; Region: TIGR00093 266264008529 active site; other site 266264008530 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 266264008531 Protein of unknown function (DUF520); Region: DUF520; cl00723 266264008532 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 266264008533 FAD binding domain; Region: FAD_binding_4; cl10516 266264008534 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 266264008535 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 266264008536 ornithine carbamoyltransferase; Provisional; Region: PRK00779 266264008537 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 266264008538 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 266264008539 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 266264008540 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 266264008541 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 266264008542 Uncharacterized conserved protein [Function unknown]; Region: COG2912 266264008543 putative transcriptional regulator; Provisional; Region: PRK10941 266264008544 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 266264008545 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 266264008546 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 266264008547 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 266264008548 ATP binding site; other site 266264008549 Mg2+ binding site; other site 266264008550 G-X-G motif; other site 266264008551 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 266264008552 ATP binding site; other site 266264008553 MutL C terminal dimerization domain; Region: MutL_C; cl07336 266264008554 IPP transferase; Region: IPPT; cl00403 266264008555 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 266264008556 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264008557 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 266264008558 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...; Region: PurM; cd02196 266264008559 dimerization interface; other site 266264008560 putative ATP binding site; other site 266264008561 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264008562 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; cl11391 266264008563 poly(A) polymerase; Region: pcnB; TIGR01942 266264008564 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 266264008565 active site; other site 266264008566 NTP binding site; other site 266264008567 metal binding triad; other site 266264008568 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 266264008569 catalytic center binding site; other site 266264008570 ATP binding site; other site 266264008571 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 266264008572 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...; Region: dNK; cd01673 266264008573 Substrate-binding site; other site 266264008574 Substrate specificity; other site 266264008575 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 266264008576 oligomerization interface; other site 266264008577 active site; other site 266264008578 metal binding site; other site 266264008579 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...; Region: TM_PBP2; cd06261 266264008580 dimer interface; other site 266264008581 conserved gate region; other site 266264008582 putative PBP binding loops; other site 266264008583 ABC-ATPase subunit interface; other site 266264008584 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 266264008585 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 266264008586 Walker A/P-loop; other site 266264008587 ATP binding site; other site 266264008588 Q-loop/lid; other site 266264008589 ABC transporter signature motif; other site 266264008590 Walker B; other site 266264008591 D-loop; other site 266264008592 H-loop/switch region; other site 266264008593 chorismate binding enzyme; Region: Chorismate_bind; cl10555 266264008594 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 266264008595 homodimer interface; other site 266264008596 substrate-cofactor binding pocket; other site 266264008597 pyridoxal 5'-phosphate binding site; other site 266264008598 catalytic residue; other site 266264008599 chaperone protein DnaJ; Provisional; Region: PRK10767 266264008600 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...; Region: DnaJ; cd06257 266264008601 HSP70 interaction site; other site 266264008602 DnaJ C terminal region; Region: DnaJ_C; pfam01556 266264008603 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 266264008604 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 266264008605 FAD binding domain; Region: FAD_binding_4; cl10516 266264008606 D-lactate dehydrogenase; Region: PLN02805 266264008607 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264008608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264008609 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 266264008610 dimerization interface; other site 266264008611 substrate binding pocket; other site 266264008612 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 266264008613 FAD binding domain; Region: FAD_binding_4; cl10516 266264008614 Ion transport protein; Region: Ion_trans; pfam00520 266264008615 Ion channel; Region: Ion_trans_2; cl11596 266264008616 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 266264008617 FAD binding domain; Region: FAD_binding_4; cl10516 266264008618 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 266264008619 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 alpha-.; Region: HCP_like; cl00255 266264008620 Cysteine-rich domain; Region: CCG; pfam02754 266264008621 Cysteine-rich domain; Region: CCG; pfam02754 266264008622 LrgA family; Region: LrgA; cl00608 266264008623 LrgB-like family; Region: LrgB; cl00596 266264008624 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264008625 Predicted transcriptional regulator [Transcription]; Region: COG2378 266264008626 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264008627 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...; Region: GSH_Peroxidase; cd00340 266264008628 catalytic residues; other site 266264008629 dimer interface; other site 266264008630 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 266264008631 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 266264008632 Walker A motif; other site 266264008633 ATP binding site; other site 266264008634 Walker B motif; other site 266264008635 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 266264008636 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 266264008637 Walker A motif; other site 266264008638 ATP binding site; other site 266264008639 Walker B motif; other site 266264008640 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 266264008641 pyridoxal 5'-phosphate (PLP) binding site; other site 266264008642 catalytic residue; other site 266264008643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008644 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 266264008645 UbiA prenyltransferase family; Region: UbiA; cl00337 266264008646 Ferritin-like domain; Region: Ferritin; pfam00210 266264008647 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 266264008648 dimerization interface; other site 266264008649 DPS ferroxidase diiron center; other site 266264008650 ion pore; other site 266264008651 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 266264008652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264008653 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 266264008654 dimerization interface; other site 266264008655 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 266264008656 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 four-...; Region: RecG_wedge_OBF; cd04488 266264008657 generic binding surface II; other site 266264008658 ssDNA binding site; other site 266264008659 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 266264008660 ATP binding site; other site 266264008661 putative Mg++ binding site; other site 266264008662 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 266264008663 nucleotide binding region; other site 266264008664 ATP-binding site; other site 266264008665 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 266264008666 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 266264008667 Preprotein translocase subunit; Region: YajC; cl00806 266264008668 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 266264008669 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 266264008670 MMPL family; Region: MMPL; cl12044 266264008671 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 266264008672 MMPL family; Region: MMPL; cl12044 266264008673 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264008674 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 266264008675 active site; other site 266264008676 phosphorylation site; other site 266264008677 intermolecular recognition site; other site 266264008678 dimerization interface; other site 266264008679 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 266264008680 active site; other site 266264008681 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 266264008682 phosphorylation site; other site 266264008683 intermolecular recognition site; other site 266264008684 dimerization interface; other site 266264008685 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 trans...; Region: HisKA; cd00082 266264008686 dimer interface; other site 266264008687 phosphorylation site; other site 266264008688 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 266264008689 ATP binding site; other site 266264008690 Mg2+ binding site; other site 266264008691 G-X-G motif; other site 266264008692 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 266264008693 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 trans...; Region: HisKA; cd00082 266264008694 dimer interface; other site 266264008695 phosphorylation site; other site 266264008696 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 266264008697 ATP binding site; other site 266264008698 Mg2+ binding site; other site 266264008699 G-X-G motif; other site 266264008700 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; cl12011 266264008701 YceI-like domain; Region: YceI; cl01001 266264008702 YceI-like domain; Region: YceI; cl01001 266264008703 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 266264008704 adenylosuccinate lyase; Provisional; Region: PRK09285 266264008705 PurB: PurB_like adenylosuccinases (adenylsuccinate lyase, ASL). This group contains proteins similar to EcASL, the product of the gene purB in Escherichia coli. ASL is a member of the Lyase class I family of the Lyase_I superfamily. Members of the...; Region: PurB; cd01598 266264008706 tetramer interface; other site 266264008707 active site; other site 266264008708 putative glutathione S-transferase; Provisional; Region: PRK10357 266264008709 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 266264008710 putative C-terminal domain interface; other site 266264008711 putative GSH binding site (G-site); other site 266264008712 putative dimer interface; other site 266264008713 GST_C family, unknown subfamily 6; 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_C_6; cd03205 266264008714 putative N-terminal domain interface; other site 266264008715 putative dimer interface; other site 266264008716 putative substrate binding pocket (H-site); other site 266264008717 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 266264008718 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 266264008719 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...; Region: Nudix_Hydrolase_2; cd03675 266264008720 nudix motif; other site 266264008721 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 266264008722 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 266264008723 dimer interface; other site 266264008724 active site; other site 266264008725 catalytic residue; other site 266264008726 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 266264008727 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 266264008728 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 266264008729 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; cl12011 266264008730 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 266264008731 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 266264008732 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 266264008733 active site; other site 266264008734 phosphorylation site; other site 266264008735 intermolecular recognition site; other site 266264008736 dimerization interface; other site 266264008737 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 266264008738 THUMP domain; Region: THUMP; cl12076 266264008739 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; cl12011 266264008740 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 266264008741 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 1,2...; Region: DsbA_HCCA_Iso; cd03022 266264008742 putative catalytic residue; other site 266264008743 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 266264008744 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 266264008745 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 266264008746 putative catalytic cysteine; other site 266264008747 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 266264008748 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 266264008749 Rare lipoprotein B family; Region: RplB; cl01125 266264008750 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 266264008751 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 266264008752 HIGH motif; other site 266264008753 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 266264008754 active site; other site 266264008755 KMSKS motif; other site 266264008756 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 266264008757 tRNA binding surface; other site 266264008758 dihydrodipicolinate reductase; Provisional; Region: PRK00048 266264008759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008760 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 266264008761 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 266264008762 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 266264008763 metal binding site 2; other site 266264008764 putative DNA binding helix; other site 266264008765 metal binding site 1; other site 266264008766 dimer interface; other site 266264008767 structural Zn2+ binding site; other site 266264008768 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 266264008769 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264008770 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 266264008771 dimerization interface; other site 266264008772 Flavin Reductases; Region: FlaRed; cl00801 266264008773 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 266264008774 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 266264008775 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 266264008776 transketolase; Reviewed; Region: PRK05899 266264008777 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 266264008778 TPP-binding site; other site 266264008779 dimer interface; other site 266264008780 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 266264008781 PYR/PP interface; other site 266264008782 dimer interface; other site 266264008783 TPP binding site; other site 266264008784 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 266264008785 spermidine synthase; Provisional; Region: PRK00811 266264008786 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; cl12011 266264008787 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264008788 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 266264008789 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 266264008790 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 266264008791 putative RNAase interaction site; other site 266264008792 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...; Region: RNase_Sa; cd00607 266264008793 active site; other site 266264008794 barstar interaction site; other site 266264008795 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...; Region: MTHFR; cl00246 266264008796 FAD binding site; other site 266264008797 Uncharacterized BCR, COG1636; Region: DUF208; cl00708 266264008798 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 266264008799 putative transposase OrfB; Reviewed; Region: PHA02517 266264008800 Integrase core domain; Region: rve; cl01316 266264008801 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 266264008802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008803 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...; Region: TM_PBP2; cd06261 266264008804 dimer interface; other site 266264008805 conserved gate region; other site 266264008806 ABC-ATPase subunit interface; other site 266264008807 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 266264008808 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...; Region: PBPb; cl11400 266264008809 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 266264008810 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 266264008811 Walker A/P-loop; other site 266264008812 ATP binding site; other site 266264008813 Q-loop/lid; other site 266264008814 ABC transporter signature motif; other site 266264008815 Walker B; other site 266264008816 D-loop; other site 266264008817 H-loop/switch region; other site 266264008818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264008819 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 266264008820 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 266264008821 dimerization interface; other site 266264008822 Transposase; Region: Transposase_7; pfam01526 266264008823 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264008824 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 266264008825 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 266264008826 active site; other site 266264008827 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 266264008828 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264008829 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264008830 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264008831 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264008832 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 266264008833 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264008834 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264008835 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264008836 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 266264008837 active site; other site 266264008838 phosphorylation site; other site 266264008839 intermolecular recognition site; other site 266264008840 dimerization interface; other site 266264008841 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...; Region: trans_reg_C; cd00383 266264008842 DNA binding site; other site 266264008843 sensor protein QseC; Provisional; Region: PRK10337 266264008844 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 trans-...; Region: HisKA; cd00082 266264008845 dimer interface; other site 266264008846 phosphorylation site; other site 266264008847 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 266264008848 ATP binding site; other site 266264008849 Mg2+ binding site; other site 266264008850 G-X-G motif; other site 266264008851 EamA-like transporter family; Region: EamA; cl01037 266264008852 multiple promoter invertase; Provisional; Region: mpi; PRK13413 266264008853 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 266264008854 catalytic residues; other site 266264008855 catalytic nucleophile; other site 266264008856 Presynaptic Site I dimer interface; other site 266264008857 Synaptic Antiparallel dimer interface; other site 266264008858 Synaptic Flat tetramer interface; other site 266264008859 Synaptic Site I dimer interface; other site 266264008860 DNA binding site; other site 266264008861 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 266264008862 DNA-binding interface; other site 266264008863 TniQ; Region: TniQ; pfam06527 266264008864 Bacterial TniB protein; Region: TniB; pfam05621 266264008865 Integrase core domain; Region: rve; cl01316 266264008866 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 266264008867 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 266264008868 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264008869 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 266264008870 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 266264008871 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 266264008872 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 266264008873 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 trans-...; Region: HisKA; cd00082 266264008874 dimer interface; other site 266264008875 phosphorylation site; other site 266264008876 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 266264008877 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264008878 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 266264008879 active site; other site 266264008880 phosphorylation site; other site 266264008881 intermolecular recognition site; other site 266264008882 dimerization interface; other site 266264008883 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...; Region: trans_reg_C; cd00383 266264008884 DNA binding site; other site 266264008885 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 266264008886 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 266264008887 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 266264008888 FAD binding pocket; other site 266264008889 FAD binding motif; other site 266264008890 phosphate binding motif; other site 266264008891 beta-alpha-beta structure motif; other site 266264008892 NAD binding pocket; other site 266264008893 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 266264008894 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 266264008895 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88),...; Region: Peptidase_S24_S26; cl10465 266264008896 Peptidase S26; Region: Peptidase_S26; pfam10502 266264008897 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 266264008898 ParA-like protein; Provisional; Region: PHA02518 266264008899 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...; Region: ParA; cd02042 266264008900 P-loop; other site 266264008901 Magnesium ion binding site; other site 266264008902 Replication initiator protein A; Region: RPA; cl02339 266264008903 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 266264008904 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 266264008905 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 266264008906 non-specific DNA binding site; other site 266264008907 salt bridge; other site 266264008908 sequence-specific DNA binding site; other site 266264008909 Protein of unknown function (DUF736); Region: DUF736; cl02303 266264008910 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 266264008911 Coenzyme A binding pocket; other site 266264008912 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 266264008913 ParB-like nuclease domain; Region: ParBc; cl02129 266264008914 Domain of unknown function (DUF932); Region: DUF932; cl12129 266264008915 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 266264008916 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264008917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264008918 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl00287 266264008919 Predicted transcriptional regulator [Transcription]; Region: COG2378 266264008920 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 266264008921 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 266264008922 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 266264008923 DNA binding site; other site 266264008924 Int/Topo IB signature motif; other site 266264008925 active site; other site 266264008926 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 266264008927 malic enzyme; Reviewed; Region: PRK12862 266264008928 Malic enzyme, N-terminal domain; Region: malic; pfam00390 266264008929 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 266264008930 putative NAD(P) binding site; other site 266264008931 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 266264008932 thiamine monophosphate kinase; Provisional; Region: PRK05731 266264008933 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 266264008934 ATP binding site; other site 266264008935 dimerization interface; other site 266264008936 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 266264008937 tetramer interfaces; other site 266264008938 binuclear metal-binding site; other site 266264008939 Competence-damaged protein; Region: CinA; cl00666 266264008940 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 266264008941 active site; other site 266264008942 dimer interface; other site 266264008943 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 266264008944 EamA-like transporter family; Region: EamA; cl01037 266264008945 EamA-like transporter family; Region: EamA; cl01037 266264008946 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 266264008947 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 266264008948 Transglycosylase; Region: Transgly; cl07896 266264008949 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 266264008950 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 266264008951 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 266264008952 shikimate binding site; other site 266264008953 NAD(P) binding site; other site 266264008954 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 266264008955 Gram-negative bacterial tonB protein; Region: TonB; cl10048 266264008956 Exoribonuclease R [Transcription]; Region: VacB; COG0557 266264008957 RNB domain; Region: RNB; pfam00773 266264008958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264008959 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 266264008960 Chorismate lyase; Region: Chor_lyase; cl01230 266264008961 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 266264008962 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 266264008963 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 266264008964 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 266264008965 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 266264008966 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...; Region: TlpA_like_family; cd02966 266264008967 catalytic residues; other site 266264008968 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 266264008969 trimer interface; other site 266264008970 active site; other site 266264008971 dimer interface; other site 266264008972 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 266264008973 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 266264008974 carboxyltransferase (CT) interaction site; other site 266264008975 biotinylation site; other site 266264008976 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 266264008977 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 266264008978 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264008979 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 266264008980 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 266264008981 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 266264008982 S-adenosylmethionine binding site; other site 266264008983 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 266264008984 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 266264008985 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 266264008986 dimer interface; other site 266264008987 catalytic triad; other site 266264008988 peroxidatic and resolving cysteines; other site 266264008989 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 266264008990 substrate binding site; other site 266264008991 ATP binding site; other site 266264008992 Rickettsia 17 kDa surface antigen; Region: Rick_17kDa_Anti; cl10470 266264008993 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 266264008994 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...; Region: PBPb; cl11400 266264008995 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 266264008996 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 266264008997 N-terminal plug; other site 266264008998 ligand-binding site; other site 266264008999 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 266264009000 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009001 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 266264009002 dimerization interface; other site 266264009003 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 266264009004 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...; Region: Aldo_ket_red; cd06660 266264009005 active site; other site 266264009006 catalytic tetrad; other site 266264009007 Family of unknown function (DUF500); Region: DUF500; cl01109 266264009008 Putative exonuclease, RdgC; Region: RdgC; cl01122 266264009009 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 266264009010 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 266264009011 putative NAD(P) binding site; other site 266264009012 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...; Region: PBPb; cl11400 266264009013 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 266264009014 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 266264009015 dimer interface; other site 266264009016 putative radical transfer pathway; other site 266264009017 diiron center; other site 266264009018 tyrosyl radical; other site 266264009019 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 266264009020 ATP cone domain; Region: ATP-cone; pfam03477 266264009021 Class I ribonucleotide reductase; Region: RNR_I; cd01679 266264009022 active site; other site 266264009023 dimer interface; other site 266264009024 catalytic residues; other site 266264009025 effector binding site; other site 266264009026 R2 peptide binding site; other site 266264009027 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 266264009028 amidase catalytic site; other site 266264009029 Zn binding residues; other site 266264009030 substrate binding site; other site 266264009031 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 266264009032 active site; other site 266264009033 phosphorylation site; other site 266264009034 intermolecular recognition site; other site 266264009035 dimerization interface; other site 266264009036 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...; Region: AAA; cd00009 266264009037 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 266264009038 Walker A motif; other site 266264009039 ATP binding site; other site 266264009040 Walker B motif; other site 266264009041 arginine finger; other site 266264009042 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 266264009043 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264009044 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 trans...; Region: HisKA; cd00082 266264009045 dimer interface; other site 266264009046 phosphorylation site; other site 266264009047 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 266264009048 ATP binding site; other site 266264009049 Mg2+ binding site; other site 266264009050 G-X-G motif; other site 266264009051 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 266264009052 Signal recognition particle GTPase [Intracellular trafficking and secretion]; Region: Ffh; COG0541 266264009053 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 266264009054 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 266264009055 P loop; other site 266264009056 GTP binding site; other site 266264009057 Signal peptide binding domain; Region: SRP_SPB; pfam02978 266264009058 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264009059 LysE type translocator; Region: LysE; cl00565 266264009060 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...; Region: Tryp_SPc; cl00149 266264009061 active site; other site 266264009062 substrate binding sites; other site 266264009063 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 266264009064 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 266264009065 N-acetyl-D-glucosamine binding site; other site 266264009066 catalytic residue; other site 266264009067 prolyl-tRNA synthetase; Provisional; Region: PRK09194 266264009068 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...; Region: ProRS_core_prok; cd00779 266264009069 dimer interface; other site 266264009070 motif 1; other site 266264009071 active site; other site 266264009072 motif 2; other site 266264009073 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 single-...; Region: ProRS-INS; cd04334 266264009074 putative deacylase active site; other site 266264009075 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...; Region: class_II_aaRS-like_core; cl00268 266264009076 active site; other site 266264009077 motif 3; other site 266264009078 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-...; Region: ProRS_anticodon_short; cd00861 266264009079 anticodon binding site; other site 266264009080 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...; Region: Ap4A_hydrolase_plant_like; cd03671 266264009081 putative active site; other site 266264009082 Ap4A binding site; other site 266264009083 nudix motif; other site 266264009084 putative metal binding site; other site 266264009085 CNP1-like family; Region: CNP1; pfam08750 266264009086 gamma-glutamyl kinase; Provisional; Region: PRK05429 266264009087 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 266264009088 nucleotide binding site; other site 266264009089 homotetrameric interface; other site 266264009090 putative phosphate binding site; other site 266264009091 putative allosteric binding site; other site 266264009092 PUA domain; Region: PUA; cl00607 266264009093 GTPase ObgE; Reviewed; Region: obgE; PRK12299 266264009094 GTP1/OBG; Region: GTP1_OBG; pfam01018 266264009095 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 266264009096 G1 box; other site 266264009097 GTP/Mg2+ binding site; other site 266264009098 Switch I region; other site 266264009099 G2 box; other site 266264009100 G3 box; other site 266264009101 Switch II region; other site 266264009102 G4 box; other site 266264009103 G5 box; other site 266264009104 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 266264009105 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 266264009106 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 266264009107 substrate binding pocket; other site 266264009108 chain length determination region; other site 266264009109 substrate-Mg2+ binding site; other site 266264009110 catalytic residues; other site 266264009111 aspartate-rich region 1; other site 266264009112 active site lid residues; other site 266264009113 aspartate-rich region 2; other site 266264009114 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 266264009115 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 266264009116 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 266264009117 Walker A motif; other site 266264009118 ATP binding site; other site 266264009119 Walker B motif; other site 266264009120 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 266264009121 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264009122 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264009123 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 266264009124 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 266264009125 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 266264009126 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 266264009127 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 266264009128 CoA-binding site; other site 266264009129 ATP-binding; other site 266264009130 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 266264009131 Domain of unknown function (DUF329); Region: DUF329; cl01144 266264009132 Predicted membrane protein [Function unknown]; Region: COG1297; cl14607 266264009133 putative oligopeptide transporter, OPT family; Region: TIGR00733 266264009134 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 266264009135 active site; other site 266264009136 8-oxo-dGMP binding site; other site 266264009137 nudix motif; other site 266264009138 metal binding site; other site 266264009139 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 266264009140 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...; Region: AAA; cd00009 266264009141 Walker A motif; other site 266264009142 ATP binding site; other site 266264009143 Walker B motif; other site 266264009144 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...; Region: OAT; cd02152 266264009145 heterotetramer interface; other site 266264009146 active site pocket; other site 266264009147 cleavage site; other site 266264009148 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 266264009149 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 266264009150 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 266264009151 nucleotide binding region; other site 266264009152 ATP-binding site; other site 266264009153 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 266264009154 SEC-C motif; Region: SEC-C; cl12132 266264009155 Peptidase family M23; Region: Peptidase_M23; pfam01551 266264009156 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 266264009157 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 266264009158 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 266264009159 catalytic triad; other site 266264009160 dimer interface; other site 266264009161 cell division protein FtsZ; Validated; Region: PRK09330 266264009162 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...; Region: FtsZ_type1; cd02201 266264009163 nucleotide binding site; other site 266264009164 SulA interaction site; other site 266264009165 cell division protein FtsA; Region: ftsA; TIGR01174 266264009166 Cell division protein FtsA; Region: FtsA; cl11496 266264009167 Cell division protein FtsA; Region: FtsA; cl11496 266264009168 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 266264009169 Cell division protein FtsQ; Region: FtsQ; pfam03799 266264009170 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 266264009171 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 266264009172 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264009173 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 266264009174 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 266264009175 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 266264009176 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 266264009177 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 266264009178 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...; Region: GT1_MurG; cd03785 266264009179 active site; other site 266264009180 homodimer interface; other site 266264009181 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 266264009182 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 266264009183 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 266264009184 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 266264009185 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 266264009186 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 266264009187 Mg++ binding site; other site 266264009188 putative catalytic motif; other site 266264009189 putative substrate binding site; other site 266264009190 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 266264009191 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 266264009192 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 266264009193 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 266264009194 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 266264009195 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 266264009196 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 266264009197 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 266264009198 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 266264009199 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 266264009200 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 266264009201 Septum formation initiator; Region: DivIC; cl11433 266264009202 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; cl12011 266264009203 MraZ protein; Region: MraZ; pfam02381 266264009204 cell division protein MraZ; Reviewed; Region: PRK00326 266264009205 MraZ protein; Region: MraZ; pfam02381 266264009206 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 266264009207 diiron binding motif; other site 266264009208 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,...; Region: OM_channels; cl00284 266264009209 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264009210 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264009211 Integrase core domain; Region: rve; cl01316 266264009212 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...; Region: gram_neg_porins; cd00342 266264009213 trimer interface; other site 266264009214 eyelet of channel; other site 266264009215 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...; Region: PBPb; cl11400 266264009216 Transcriptional regulators [Transcription]; Region: MarR; COG1846 266264009217 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009218 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 266264009219 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264009220 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264009221 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264009222 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl01778 266264009223 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 266264009224 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...; Region: MopB_3; cd02766 266264009225 putative [4Fe-4S] binding site; other site 266264009226 putative molybdopterin cofactor binding site; other site 266264009227 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 266264009228 putative molybdopterin cofactor binding site; other site 266264009229 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264009230 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 266264009231 putative ligand binding site; other site 266264009232 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 266264009233 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 266264009234 Walker A/P-loop; other site 266264009235 ATP binding site; other site 266264009236 Q-loop/lid; other site 266264009237 ABC transporter signature motif; other site 266264009238 Walker B; other site 266264009239 D-loop; other site 266264009240 H-loop/switch region; other site 266264009241 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264009242 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 266264009243 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 266264009244 Walker A/P-loop; other site 266264009245 ATP binding site; other site 266264009246 Q-loop/lid; other site 266264009247 ABC transporter signature motif; other site 266264009248 Walker B; other site 266264009249 D-loop; other site 266264009250 H-loop/switch region; other site 266264009251 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264009252 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...; Region: TM_PBP2; cd06261 266264009253 putative PBP binding loops; other site 266264009254 ABC-ATPase subunit interface; other site 266264009255 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...; Region: TM_PBP2; cd06261 266264009256 dimer interface; other site 266264009257 conserved gate region; other site 266264009258 putative PBP binding loops; other site 266264009259 ABC-ATPase subunit interface; other site 266264009260 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 266264009261 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 266264009262 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 266264009263 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264009264 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 266264009265 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 266264009266 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264009267 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 266264009268 substrate binding site; other site 266264009269 oxyanion hole (OAH) forming residues; other site 266264009270 trimer interface; other site 266264009271 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264009272 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 266264009273 substrate binding site; other site 266264009274 oxyanion hole (OAH) forming residues; other site 266264009275 trimer interface; other site 266264009276 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 266264009277 CoenzymeA binding site; other site 266264009278 subunit interaction site; other site 266264009279 PHB binding site; other site 266264009280 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264009281 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 266264009282 GAF domain; Region: GAF; cl00853 266264009283 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...; Region: AAA; cd00009 266264009284 Walker A motif; other site 266264009285 ATP binding site; other site 266264009286 Walker B motif; other site 266264009287 arginine finger; other site 266264009288 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...; Region: Heme_Cu_Oxidase_I; cl00275 266264009289 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 266264009290 Cytochrome c; Region: Cytochrom_C; cl11414 266264009291 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 266264009292 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 266264009293 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 266264009294 FeS/SAM binding site; other site 266264009295 Cytochrome c; Region: Cytochrom_C; cl11414 266264009296 Cytochrome c; Region: Cytochrom_C; cl11414 266264009297 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 266264009298 MltA specific insert domain; Region: MltA; pfam03562 266264009299 3D domain; Region: 3D; cl01439 266264009300 Protein of unknown function (DUF525); Region: DUF525; cl01119 266264009301 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...; Region: RPE; cd00429 266264009302 substrate binding site; other site 266264009303 hexamer interface; other site 266264009304 metal binding site; other site 266264009305 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 266264009306 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 266264009307 motif II; other site 266264009308 anthranilate synthase component I; Provisional; Region: PRK13565 266264009309 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 266264009310 chorismate binding enzyme; Region: Chorismate_bind; cl10555 266264009311 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 266264009312 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 266264009313 glutamine binding; other site 266264009314 catalytic triad; other site 266264009315 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 266264009316 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 266264009317 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 266264009318 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 266264009319 active site; other site 266264009320 ribulose/triose binding site; other site 266264009321 phosphate binding site; other site 266264009322 substrate (anthranilate) binding pocket; other site 266264009323 product (indole) binding pocket; other site 266264009324 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 266264009325 putative active site; other site 266264009326 putative triphosphate binding site; other site 266264009327 putative metal binding residues; other site 266264009328 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 266264009329 Acylphosphatase; Region: Acylphosphatase; cl00551 266264009330 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 266264009331 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,...; Region: TM_PBP2; cd06261 266264009332 dimer interface; other site 266264009333 conserved gate region; other site 266264009334 putative PBP binding loops; other site 266264009335 ABC-ATPase subunit interface; other site 266264009336 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,...; Region: TM_PBP2; cd06261 266264009337 dimer interface; other site 266264009338 conserved gate region; other site 266264009339 putative PBP binding loops; other site 266264009340 ABC-ATPase subunit interface; other site 266264009341 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 266264009342 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 266264009343 Walker A/P-loop; other site 266264009344 ATP binding site; other site 266264009345 Q-loop/lid; other site 266264009346 ABC transporter signature motif; other site 266264009347 Walker B; other site 266264009348 D-loop; other site 266264009349 H-loop/switch region; other site 266264009350 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl01965 266264009351 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 266264009352 hypothetical membrane protein, TIGR01666; Region: YCCS 266264009353 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 266264009354 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 266264009355 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 266264009356 protein binding site; other site 266264009357 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 266264009358 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 266264009359 NADP binding site; other site 266264009360 dimer interface; other site 266264009361 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...; Region: DsbA_DsbC_DsbG; cd03020 266264009362 dimerization domain; other site 266264009363 dimer interface; other site 266264009364 catalytic residues; other site 266264009365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264009366 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 266264009367 GTP-dependent nucleic acid-binding protein EngD; Reviewed; Region: PRK09601 266264009368 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 266264009369 G1 box; other site 266264009370 GTP/Mg2+ binding site; other site 266264009371 Switch I region; other site 266264009372 G2 box; other site 266264009373 Switch II region; other site 266264009374 G3 box; other site 266264009375 G4 box; other site 266264009376 G5 box; other site 266264009377 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 266264009378 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 266264009379 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 266264009380 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 266264009381 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 266264009382 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 266264009383 tRNA; other site 266264009384 putative tRNA binding site; other site 266264009385 putative NADP binding site; other site 266264009386 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 266264009387 peptide chain release factor 1; Validated; Region: prfA; PRK00591 266264009388 RF-1 domain; Region: RF-1; cl02875 266264009389 RF-1 domain; Region: RF-1; cl02875 266264009390 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 266264009391 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 266264009392 S-adenosylmethionine binding site; other site 266264009393 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 266264009394 putative GSH binding site; other site 266264009395 catalytic residues; other site 266264009396 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 266264009397 Flavoprotein; Region: Flavoprotein; cl08021 266264009398 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 266264009399 NAD(P) binding site; other site 266264009400 catalytic residues; other site 266264009401 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 266264009402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264009403 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 266264009404 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009405 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 266264009406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264009407 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 266264009408 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 266264009409 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 266264009410 putative ion selectivity filter; other site 266264009411 putative pore gating glutamate residue; other site 266264009412 putative H+/Cl- coupling transport residue; other site 266264009413 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...; Region: PBPb; cl11400 266264009414 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 266264009415 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264009416 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264009417 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009418 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 266264009419 putative effector binding pocket; other site 266264009420 dimerization interface; other site 266264009421 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009422 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 266264009423 MatE; Region: MatE; pfam01554 266264009424 MatE; Region: MatE; pfam01554 266264009425 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 266264009426 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 266264009427 putative active site; other site 266264009428 putative metal binding site; other site 266264009429 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 266264009430 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264009431 Walker A/P-loop; other site 266264009432 ATP binding site; other site 266264009433 Q-loop/lid; other site 266264009434 ABC transporter signature motif; other site 266264009435 Walker B; other site 266264009436 D-loop; other site 266264009437 H-loop/switch region; other site 266264009438 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...; Region: ABCF_EF-3; cd03221 266264009439 Protein of unknown function DUF45; Region: DUF45; cl00636 266264009440 TM1410 hypothetical-related protein; Region: DUF297; cl00997 266264009441 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264009442 metal binding site; other site 266264009443 active site; other site 266264009444 I-site; other site 266264009445 Stringent starvation protein B; Region: SspB; cl01120 266264009446 stringent starvation protein A; Provisional; Region: sspA; PRK09481 266264009447 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 266264009448 C-terminal domain interface; other site 266264009449 putative GSH binding site (G-site); other site 266264009450 dimer interface; other site 266264009451 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_C_SspA; cd03186 266264009452 dimer interface; other site 266264009453 N-terminal domain interface; other site 266264009454 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 266264009455 cytochrome b; Provisional; Region: CYTB; MTH00145 266264009456 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 266264009457 Qi binding site; other site 266264009458 intrachain domain interface; other site 266264009459 interchain domain interface; other site 266264009460 heme bH binding site; other site 266264009461 heme bL binding site; other site 266264009462 Qo binding site; other site 266264009463 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 266264009464 interchain domain interface; other site 266264009465 intrachain domain interface; other site 266264009466 Qi binding site; other site 266264009467 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 266264009468 Qo binding site; other site 266264009469 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 266264009470 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 266264009471 [2Fe-2S] cluster binding site; other site 266264009472 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 266264009473 Uncharacterized conserved protein [Function unknown]; Region: COG0327 266264009474 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 266264009475 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...; Region: Tryp_SPc; cl00149 266264009476 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 C-...; Region: PDZ_serine_protease; cd00987 266264009477 protein binding site; other site 266264009478 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...; Region: gram_neg_porins; cd00342 266264009479 trimer interface; other site 266264009480 eyelet of channel; other site 266264009481 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 266264009482 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 266264009483 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 266264009484 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 266264009485 nucleotide binding site/active site; other site 266264009486 HIT family signature motif; other site 266264009487 catalytic residue; other site 266264009488 Predicted membrane protein [Function unknown]; Region: COG3671 266264009489 Phosphoribosyl-ATP pyrophosphohydrolase; Region: PRA-PH; cl00345 266264009490 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 266264009491 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)-formimino-5-.; Region: HisF; cd04731 266264009492 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 266264009493 substrate binding site; other site 266264009494 glutamase interaction surface; other site 266264009495 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 266264009496 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 266264009497 catalytic residues; other site 266264009498 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 266264009499 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 266264009500 putative active site; other site 266264009501 oxyanion strand; other site 266264009502 catalytic triad; other site 266264009503 MarC family integral membrane protein; Region: MarC; cl00919 266264009504 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 266264009505 putative active site pocket; other site 266264009506 4-fold oligomerization interface; other site 266264009507 metal binding residues; other site 266264009508 3-fold/trimer interface; other site 266264009509 histidinol-phosphate aminotransferase; Provisional; Region: PLN03027 266264009510 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 266264009511 pyridoxal 5'-phosphate binding site; other site 266264009512 homodimer interface; other site 266264009513 catalytic residue; other site 266264009514 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 266264009515 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 oxidation of L-histidinol to L...; Region: Histidinol_dh; cd06572 266264009516 NAD binding site; other site 266264009517 dimerization interface; other site 266264009518 product binding site; other site 266264009519 substrate binding site; other site 266264009520 zinc binding site; other site 266264009521 catalytic residues; other site 266264009522 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...; Region: PBPb; cl11400 266264009523 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 266264009524 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 266264009525 hinge; other site 266264009526 active site; other site 266264009527 BolA-like protein; Region: BolA; cl00386 266264009528 ABC-2 type transporter; Region: ABC2_membrane; cl11417 266264009529 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 266264009530 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 266264009531 Walker A/P-loop; other site 266264009532 ATP binding site; other site 266264009533 Q-loop/lid; other site 266264009534 ABC transporter signature motif; other site 266264009535 Walker B; other site 266264009536 D-loop; other site 266264009537 H-loop/switch region; other site 266264009538 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 266264009539 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 266264009540 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 266264009541 VacJ like lipoprotein; Region: VacJ; cl01073 266264009542 mce related protein; Region: MCE; pfam02470 266264009543 Domain of unknown function DUF140; Region: DUF140; cl00510 266264009544 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 266264009545 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 266264009546 Walker A/P-loop; other site 266264009547 ATP binding site; other site 266264009548 Q-loop/lid; other site 266264009549 ABC transporter signature motif; other site 266264009550 Walker B; other site 266264009551 D-loop; other site 266264009552 H-loop/switch region; other site 266264009553 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...; Region: PBPb; cl11400 266264009554 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 266264009555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264009556 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 266264009557 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 N-...; Region: GltS; cd00713 266264009558 active site; other site 266264009559 dimer interface; other site 266264009560 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 266264009561 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,...; Region: GltS_FMN; cd02808 266264009562 active site; other site 266264009563 FMN binding site; other site 266264009564 substrate binding site; other site 266264009565 3Fe-4S cluster binding site; other site 266264009566 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 266264009567 domain interface; other site 266264009568 Transposase IS200 like; Region: Transposase_17; cl00848 266264009569 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 266264009570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 266264009571 Zn2+ binding site; other site 266264009572 Mg2+ binding site; other site 266264009573 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 266264009574 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 266264009575 active site; other site 266264009576 dimer interface; other site 266264009577 metal binding site; other site 266264009578 shikimate kinase; Reviewed; Region: aroK; PRK00131 266264009579 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...; Region: SK; cd00464 266264009580 ADP binding site; other site 266264009581 magnesium binding site; other site 266264009582 putative shikimate binding site; other site 266264009583 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 266264009584 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 266264009585 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 266264009586 Pilus assembly protein, PilP; Region: PilP; cl01235 266264009587 Pilus assembly protein, PilO; Region: PilO; cl01234 266264009588 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 266264009589 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 266264009590 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 266264009591 Cell division protein FtsA; Region: FtsA; cl11496 266264009592 Transglycosylase; Region: Transgly; cl07896 266264009593 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 266264009594 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 266264009595 putative iron binding site; other site 266264009596 diaminopimelate decarboxylase; Region: lysA; TIGR01048 266264009597 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 266264009598 active site; other site 266264009599 pyridoxal 5'-phosphate (PLP) binding site; other site 266264009600 substrate binding site; other site 266264009601 catalytic residues; other site 266264009602 dimer interface; other site 266264009603 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 266264009604 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 266264009605 Moco binding site; other site 266264009606 metal coordination site; other site 266264009607 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 266264009608 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 266264009609 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...; Region: Sigma70_r4; cd06171 266264009610 DNA binding residues; other site 266264009611 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 266264009612 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 266264009613 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 266264009614 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 266264009615 Cytochrome c; Region: Cytochrom_C; cl11414 266264009616 Cytochrome c; Region: Cytochrom_C; cl11414 266264009617 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 266264009618 G1 box; other site 266264009619 GTP/Mg2+ binding site; other site 266264009620 Switch I region; other site 266264009621 G2 box; other site 266264009622 G3 box; other site 266264009623 Switch II region; other site 266264009624 G4 box; other site 266264009625 G5 box; other site 266264009626 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 266264009627 dimer interface; other site 266264009628 active site; other site 266264009629 aspartate-rich active site metal binding site; other site 266264009630 allosteric magnesium binding site; other site 266264009631 Schiff base residues; other site 266264009632 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 266264009633 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 266264009634 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 266264009635 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 266264009636 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 266264009637 DsbD alpha interface; other site 266264009638 catalytic residues; other site 266264009639 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 266264009640 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 266264009641 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 266264009642 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 266264009643 alphaNTD homodimer interface; other site 266264009644 alphaNTD - beta interaction site; other site 266264009645 alphaNTD - beta' interaction site; other site 266264009646 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 266264009647 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 266264009648 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 266264009649 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 266264009650 RNA binding surface; other site 266264009651 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 266264009652 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 266264009653 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 266264009654 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 266264009655 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 266264009656 rRNA binding site; other site 266264009657 predicted 30S ribosome binding site; other site 266264009658 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 266264009659 eubacterial secY protein; Region: SecY; pfam00344 266264009660 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 266264009661 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...; Region: Ribosomal_L30; cd01658 266264009662 23S rRNA binding site; other site 266264009663 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 266264009664 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 266264009665 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 266264009666 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 266264009667 5S rRNA interface; other site 266264009668 23S rRNA interface; other site 266264009669 L5 interface; other site 266264009670 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 266264009671 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 266264009672 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 266264009673 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 266264009674 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 266264009675 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 266264009676 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 266264009677 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 266264009678 KOW motif; Region: KOW; cl00354 266264009679 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 266264009680 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 266264009681 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...; Region: Ribosomal_L29_HIP; cd00427 266264009682 23S rRNA interface; other site 266264009683 putative translocon interaction site; other site 266264009684 signal recognition particle (SRP54) interaction site; other site 266264009685 L23 interface; other site 266264009686 trigger factor interaction site; other site 266264009687 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 266264009688 23S rRNA interface; other site 266264009689 5S rRNA interface; other site 266264009690 putative antibiotic binding site; other site 266264009691 L25 interface; other site 266264009692 L27 interface; other site 266264009693 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 266264009694 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...; Region: 30S_S3_KH; cd02412 266264009695 G-X-X-G motif; other site 266264009696 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 266264009697 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 266264009698 putative translocon binding site; other site 266264009699 protein-rRNA interface; other site 266264009700 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 266264009701 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 266264009702 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 266264009703 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 266264009704 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 266264009705 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 266264009706 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 266264009707 Flavin Reductases; Region: FlaRed; cl00801 266264009708 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 266264009709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264009710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264009711 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 266264009712 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 266264009713 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 266264009714 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 266264009715 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264009716 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 266264009717 elongation factor Tu; Reviewed; Region: PRK12735 266264009718 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. ...; Region: EF_Tu; cd01884 266264009719 G1 box; other site 266264009720 GEF interaction site; other site 266264009721 GTP/Mg2+ binding site; other site 266264009722 Switch I region; other site 266264009723 G2 box; other site 266264009724 G3 box; other site 266264009725 Switch II region; other site 266264009726 G4 box; other site 266264009727 G5 box; other site 266264009728 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 266264009729 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 266264009730 Antibiotic Binding Site; other site 266264009731 elongation factor G; Reviewed; Region: PRK00007 266264009732 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 266264009733 G1 box; other site 266264009734 putative GEF interaction site; other site 266264009735 GTP/Mg2+ binding site; other site 266264009736 Switch I region; other site 266264009737 G2 box; other site 266264009738 G3 box; other site 266264009739 Switch II region; other site 266264009740 G4 box; other site 266264009741 G5 box; other site 266264009742 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...; Region: EFG_mtEFG_II; cd04088 266264009743 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...; Region: EFG_mtEFG1_IV; cd01434 266264009744 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...; Region: EFG_mtEFG_C; cd03713 266264009745 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 266264009746 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 266264009747 S17 interaction site; other site 266264009748 S8 interaction site; other site 266264009749 16S rRNA interaction site; other site 266264009750 streptomycin interaction site; other site 266264009751 23S rRNA interaction site; other site 266264009752 aminoacyl-tRNA interaction site (A-site); other site 266264009753 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 266264009754 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 266264009755 ATP binding site; other site 266264009756 putative Mg++ binding site; other site 266264009757 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 266264009758 nucleotide binding region; other site 266264009759 ATP-binding site; other site 266264009760 RQC domain; Region: RQC; pfam09382 266264009761 HRDC domain; Region: HRDC; cl02578 266264009762 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 266264009763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264009764 DNA-binding site; other site 266264009765 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 266264009766 pyridoxal 5'-phosphate binding site; other site 266264009767 homodimer interface; other site 266264009768 catalytic residue; other site 266264009769 Cytochrome c; Region: Cytochrom_C; cl11414 266264009770 Cytochrome c; Region: Cytochrom_C; cl11414 266264009771 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 266264009772 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 266264009773 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 266264009774 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 266264009775 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 266264009776 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK02597 266264009777 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 266264009778 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 266264009779 Rpb1 - Rpb6 interaction site; other site 266264009780 DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 266264009781 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 266264009782 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 266264009783 DNA binding site; other site 266264009784 Rpb1 (beta') - Rpb2 (beta) interaction site; other site 266264009785 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 266264009786 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK05258 266264009787 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 266264009788 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 266264009789 RPB11 interaction site; other site 266264009790 RPB12 interaction site; other site 266264009791 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 266264009792 RPB3 interaction site; other site 266264009793 RPB1 interaction site; other site 266264009794 RPB11 interaction site; other site 266264009795 RPB10 interaction site; other site 266264009796 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 266264009797 core dimer interface; other site 266264009798 peripheral dimer interface; other site 266264009799 L10 interface; other site 266264009800 L11 interface; other site 266264009801 putative EF-Tu interaction site; other site 266264009802 putative EF-G interaction site; other site 266264009803 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...; Region: Ribosomal_L10; cd05797 266264009804 23S rRNA interface; other site 266264009805 Interface with L7/L12 ribosomal proteins; other site 266264009806 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...; Region: Ribosomal_L1; cd00403 266264009807 mRNA/rRNA interface; other site 266264009808 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 266264009809 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 266264009810 23S rRNA interface; other site 266264009811 L7/L12 interface; other site 266264009812 putative thiostrepton binding site; other site 266264009813 L25 interface; other site 266264009814 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 266264009815 Transcription termination factor nusG; Region: NusG; cl02766 266264009816 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 266264009817 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 266264009818 elongation factor Tu; Reviewed; Region: PRK12735 266264009819 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. ...; Region: EF_Tu; cd01884 266264009820 G1 box; other site 266264009821 GEF interaction site; other site 266264009822 GTP/Mg2+ binding site; other site 266264009823 Switch I region; other site 266264009824 G2 box; other site 266264009825 G3 box; other site 266264009826 Switch II region; other site 266264009827 G4 box; other site 266264009828 G5 box; other site 266264009829 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 266264009830 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 266264009831 Antibiotic Binding Site; other site 266264009832 Protein of unknown function, DUF488; Region: DUF488; cl01246 266264009833 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 266264009834 Nucleoside recognition; Region: Gate; cl00486 266264009835 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 266264009836 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 266264009837 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 266264009838 Ligand Binding Site; other site 266264009839 putative transposase OrfB; Reviewed; Region: PHA02517 266264009840 Integrase core domain; Region: rve; cl01316 266264009841 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; cl01116 266264009842 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 266264009843 putative metal binding site; other site 266264009844 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 266264009845 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 266264009846 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 266264009847 Transposase domain (DUF772); Region: DUF772; cl12084 266264009848 Transposase DDE domain; Region: Transposase_11; pfam01609 266264009849 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 266264009850 active site; other site 266264009851 Zn binding site; other site 266264009852 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009853 hypothetical protein; Provisional; Region: PRK06153 266264009854 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 266264009855 ATP binding site; other site 266264009856 substrate interface; other site 266264009857 transposase/IS protein; Provisional; Region: PRK09183 266264009858 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...; Region: AAA; cd00009 266264009859 Walker A motif; other site 266264009860 ATP binding site; other site 266264009861 Walker B motif; other site 266264009862 arginine finger; other site 266264009863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 266264009865 Integrase core domain; Region: rve; cl01316 266264009866 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 266264009867 Uncharacterized conserved protein [Function unknown]; Region: COG4933 266264009868 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 266264009869 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 266264009870 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 266264009871 Phenylacetic acid degradation B; Region: PaaB; cl01371 266264009872 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 266264009873 Domain of unknown function DUF59; Region: DUF59; cl00941 266264009874 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 266264009875 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...; Region: PA_degradation_oxidoreductase_like; cd06214 266264009876 FAD binding pocket; other site 266264009877 FAD binding motif; other site 266264009878 phosphate binding motif; other site 266264009879 beta-alpha-beta structure motif; other site 266264009880 NAD(p) ribose binding residues; other site 266264009881 NAD binding pocket; other site 266264009882 NAD(P)-pyrophosphate-nicotinamide binding residues; other site 266264009883 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 266264009884 catalytic loop; other site 266264009885 iron binding site; other site 266264009886 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 266264009887 Protein of unknown function; Region: DUF3658; pfam12395 266264009888 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264009889 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264009890 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 266264009891 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 266264009892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264009893 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264009894 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264009895 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 266264009896 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009897 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 266264009898 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 266264009899 nitric oxide dioxygenase; Provisional; Region: PRK13289 266264009900 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 266264009901 heme-binding site; other site 266264009902 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 266264009903 FAD binding pocket; other site 266264009904 FAD binding motif; other site 266264009905 phosphate binding motif; other site 266264009906 beta-alpha-beta structure motif; other site 266264009907 NAD binding pocket; other site 266264009908 Heme binding pocket; other site 266264009909 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 266264009910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009911 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 266264009912 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 266264009913 general secretion pathway protein H; Region: typeII_sec_gspH; TIGR01708 266264009914 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 266264009915 Bacterial type II secretion system protein I/J; Region: GSPII_IJ; pfam02501 266264009916 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 266264009917 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 266264009918 General secretion pathway protein K; Region: GspK; pfam03934 266264009919 General secretion pathway protein L (GspL); Region: GspL; cl11448 266264009920 General secretion pathway protein L (GspL); Region: GspL; cl11448 266264009921 General secretion pathway, M protein; Region: GspM; cl01222 266264009922 Bacterial type II secretion system protein N; Region: GSPII_N; pfam01203 266264009923 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 266264009924 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 266264009925 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 266264009926 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 266264009927 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 266264009928 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 266264009929 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 266264009930 Walker A motif; other site 266264009931 ATP binding site; other site 266264009932 Walker B motif; other site 266264009933 general secretion pathway protein F; Region: GspF; TIGR02120 266264009934 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264009935 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264009936 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 266264009937 putative metal binding site; other site 266264009938 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 266264009939 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 266264009940 dimer interface; other site 266264009941 PYR/PP interface; other site 266264009942 TPP binding site; other site 266264009943 substrate binding site; other site 266264009944 TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate, which are generated by the...; Region: TPP_IOR_alpha; cd02008 266264009945 TPP-binding site; other site 266264009946 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 266264009947 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 266264009948 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 266264009949 Coenzyme A binding pocket; other site 266264009950 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264009951 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264009952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264009953 putative substrate translocation pore; other site 266264009954 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 266264009955 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 266264009956 putative active site; other site 266264009957 metal binding site; other site 266264009958 metabolite-proton symporter; Region: 2A0106; TIGR00883 266264009959 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264009960 putative substrate translocation pore; other site 266264009961 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 266264009962 LysE type translocator; Region: LysE; cl00565 266264009963 Cation efflux family; Region: Cation_efflux; cl00316 266264009964 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 266264009965 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 266264009966 ligand binding site; other site 266264009967 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 266264009968 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 266264009969 B12 binding site; other site 266264009970 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; cl14056 266264009971 YdjC-like protein; Region: YdjC; cl01344 266264009972 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 266264009973 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...; Region: PBPb; cl11400 266264009974 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 266264009975 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264009976 FAD binding site; other site 266264009977 substrate binding site; other site 266264009978 catalytic base; other site 266264009979 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 266264009980 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264009981 active site; other site 266264009982 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264009983 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 266264009984 substrate binding site; other site 266264009985 oxyanion hole (OAH) forming residues; other site 266264009986 trimer interface; other site 266264009987 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264009988 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...; Region: PBPb; cl11400 266264009989 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 266264009990 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264009991 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 266264009992 putative dimerization interface; other site 266264009993 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 266264009994 active site; other site 266264009995 metal binding site; other site 266264009996 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 266264009997 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...; Region: TlpA_like_family; cd02966 266264009998 catalytic residues; other site 266264009999 DsrE/DsrF-like family; Region: DrsE; cl00672 266264010000 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 266264010001 Predicted secreted protein [Function unknown]; Region: COG5501; cl02313 266264010002 Cytochrome c; Region: Cytochrom_C; cl11414 266264010003 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 266264010004 EamA-like transporter family; Region: EamA; cl01037 266264010005 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 266264010006 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 266264010007 Cytochrome c; Region: Cytochrom_C; cl11414 266264010008 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 266264010009 Putative phospholipid-binding domain; Region: BON; cl02771 266264010010 Putative phospholipid-binding domain; Region: BON; cl02771 266264010011 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 266264010012 dimer interface; other site 266264010013 active site; other site 266264010014 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 266264010015 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 266264010016 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 266264010017 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 266264010018 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264010019 The DnaQ-like exonuclease superfamily is a structurally conserved group of 3'-5' exonucleases, which catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. It is also called the DEDD superfamily, after the...; Region: DnaQ_like_exo; cl10012 266264010020 active site; other site 266264010021 catalytic site; other site 266264010022 substrate binding site; other site 266264010023 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 266264010024 catalytic residues; other site 266264010025 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264010026 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264010027 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 266264010028 Coenzyme A binding pocket; other site 266264010029 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264010030 Uncharacterized conserved protein [Function unknown]; Region: COG2128 266264010031 Transcriptional regulators [Transcription]; Region: MarR; COG1846 266264010032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010033 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264010034 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 266264010035 allantoate amidohydrolase; Reviewed; Region: PRK12890 266264010036 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264010037 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264010038 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 266264010039 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264010040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264010041 DNA-binding site; other site 266264010042 FCD domain; Region: FCD; cl11656 266264010043 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010044 transcriptional activator TtdR; Provisional; Region: PRK09801 266264010045 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 266264010046 putative effector binding pocket; other site 266264010047 dimerization interface; other site 266264010048 glyoxylate carboligase; Provisional; Region: PRK11269 266264010049 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 266264010050 PYR/PP interface; other site 266264010051 dimer interface; other site 266264010052 TPP binding site; other site 266264010053 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 266264010054 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...; Region: TPP_enzymes; cl01629 266264010055 TPP-binding site; other site 266264010056 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 266264010057 2-hydroxy-3-oxopropionate reductase; Region: tartro_sem_red; TIGR01505 266264010058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010059 MOFRL family; Region: MOFRL; cl01013 266264010060 pyruvate kinase; Provisional; Region: PRK06247 266264010061 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; cl10032 266264010062 domain interfaces; other site 266264010063 active site; other site 266264010064 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 266264010065 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 266264010066 C-term; Region: GreA_GreB; pfam01272 266264010067 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 266264010068 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 266264010069 DNA binding residues; other site 266264010070 dimer interface; other site 266264010071 putative metal binding site; other site 266264010072 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 266264010073 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 266264010074 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 266264010075 Predicted membrane protein [Function unknown]; Region: COG3766 266264010076 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 266264010077 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 266264010078 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264010079 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 266264010080 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 266264010081 S-adenosylmethionine binding site; other site 266264010082 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 266264010083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010084 Peptidase family M48; Region: Peptidase_M48; cl12018 266264010085 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 266264010086 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 266264010087 conserved cys residue; other site 266264010088 Cytochrome P450; Region: p450; cl12078 266264010089 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 266264010090 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264010091 These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine...; Region: bifunctional_CYPOR; cd06206 266264010092 FAD binding pocket; other site 266264010093 FAD binding motif; other site 266264010094 catalytic residues; other site 266264010095 NAD binding pocket; other site 266264010096 phosphate binding motif; other site 266264010097 beta-alpha-beta structure motif; other site 266264010098 RF-1 domain; Region: RF-1; cl02875 266264010099 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 266264010100 FAD binding domain; Region: FAD_binding_4; cl10516 266264010101 Berberine and berberine like; Region: BBE; pfam08031 266264010102 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264010103 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 266264010104 substrate binding site; other site 266264010105 oxyanion hole (OAH) forming residues; other site 266264010106 trimer interface; other site 266264010107 Cytochrome c; Region: Cytochrom_C; cl11414 266264010108 Cytochrome c; Region: Cytochrom_C; cl11414 266264010109 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 266264010110 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 266264010111 FeS/SAM binding site; other site 266264010112 HemN C-terminal region; Region: HemN_C; pfam06969 266264010113 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264010114 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 266264010115 putative ligand binding site; other site 266264010116 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264010117 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 trans-...; Region: HisKA; cd00082 266264010118 dimer interface; other site 266264010119 phosphorylation site; other site 266264010120 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 266264010121 ATP binding site; other site 266264010122 Mg2+ binding site; other site 266264010123 G-X-G motif; other site 266264010124 osmolarity response regulator; Provisional; Region: ompR; PRK09468 266264010125 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 266264010126 active site; other site 266264010127 phosphorylation site; other site 266264010128 intermolecular recognition site; other site 266264010129 dimerization interface; other site 266264010130 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...; Region: trans_reg_C; cd00383 266264010131 DNA binding site; other site 266264010132 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 266264010133 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264010134 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 266264010135 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 266264010136 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 L...; Region: GCS_H; cd06848 266264010137 lipoyl attachment site; other site 266264010138 glycine dehydrogenase; Provisional; Region: PRK05367 266264010139 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...; Region: GDC-P; cd00613 266264010140 tetramer interface; other site 266264010141 pyridoxal 5'-phosphate binding site; other site 266264010142 catalytic residue; other site 266264010143 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...; Region: GDC-P; cd00613 266264010144 tetramer interface; other site 266264010145 pyridoxal 5'-phosphate binding site; other site 266264010146 catalytic residue; other site 266264010147 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 266264010148 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 266264010149 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 266264010150 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264010151 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 266264010152 uncharacterized enzyme; Region: gshA_cyan_rel; TIGR02050 266264010153 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 266264010154 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 266264010155 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 266264010156 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264010157 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 266264010158 dimerization interface; other site 266264010159 ligand binding site; other site 266264010160 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 266264010161 Predicted transcriptional regulator [Transcription]; Region: COG3905 266264010162 Proline dehydrogenase; Region: Pro_dh; cl03282 266264010163 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 266264010164 Glutamate binding site; other site 266264010165 NAD binding site; other site 266264010166 catalytic residues; other site 266264010167 primosome assembly protein PriA; Validated; Region: PRK05580 266264010168 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 266264010169 ATP binding site; other site 266264010170 putative Mg++ binding site; other site 266264010171 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; cl12029 266264010172 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 266264010173 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...; Region: URO-D; cd00717 266264010174 substrate binding site; other site 266264010175 active site; other site 266264010176 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 266264010177 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 266264010178 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 266264010179 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 266264010180 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 266264010181 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 266264010182 alpha subunit interaction interface; other site 266264010183 Walker A motif; other site 266264010184 ATP binding site; other site 266264010185 Walker B motif; other site 266264010186 inhibitor binding site; other site 266264010187 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 266264010188 ATP synthase; Region: ATP-synt; cl00365 266264010189 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 266264010190 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 266264010191 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 266264010192 beta subunit interaction interface; other site 266264010193 Walker A motif; other site 266264010194 ATP binding site; other site 266264010195 Walker B motif; other site 266264010196 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 266264010197 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl00491 266264010198 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 266264010199 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 266264010200 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 266264010201 ATP synthase subunit C; Region: ATP-synt_C; cl00466 266264010202 ATP synthase A chain; Region: ATP-synt_A; cl00413 266264010203 ATP synthase I chain; Region: ATP_synt_I; cl09170 266264010204 ParB-like partition proteins; Region: parB_part; TIGR00180 266264010205 ParB-like nuclease domain; Region: ParBc; cl02129 266264010206 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 266264010207 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...; Region: ParA; cd02042 266264010208 P-loop; other site 266264010209 Magnesium ion binding site; other site 266264010210 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...; Region: ParA; cd02042 266264010211 Magnesium ion binding site; other site 266264010212 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; cl12011 266264010213 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 266264010214 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 266264010215 N-formylglutamate amidohydrolase; Region: FGase; cl01522 266264010216 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...; Region: PBPb; cl11400 266264010217 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264010218 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010219 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 266264010220 dimerization interface; other site 266264010221 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264010222 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 266264010223 Walker A/P-loop; other site 266264010224 ATP binding site; other site 266264010225 Q-loop/lid; other site 266264010226 ABC transporter signature motif; other site 266264010227 Walker B; other site 266264010228 D-loop; other site 266264010229 H-loop/switch region; other site 266264010230 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 266264010231 TM-ABC transporter signature motif; other site 266264010232 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 266264010233 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 266264010234 Walker A/P-loop; other site 266264010235 ATP binding site; other site 266264010236 Q-loop/lid; other site 266264010237 ABC transporter signature motif; other site 266264010238 Walker B; other site 266264010239 D-loop; other site 266264010240 H-loop/switch region; other site 266264010241 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 266264010242 TM-ABC transporter signature motif; other site 266264010243 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264010244 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 266264010245 putative ligand binding site; other site 266264010246 Sulfite exporter TauE/SafE; Region: TauE; cl00498 266264010247 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 266264010248 TM-ABC transporter signature motif; other site 266264010249 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 266264010250 TM-ABC transporter signature motif; other site 266264010251 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264010252 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 266264010253 putative ligand binding site; other site 266264010254 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264010255 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 266264010256 Walker A/P-loop; other site 266264010257 ATP binding site; other site 266264010258 Q-loop/lid; other site 266264010259 ABC transporter signature motif; other site 266264010260 Walker B; other site 266264010261 D-loop; other site 266264010262 H-loop/switch region; other site 266264010263 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 266264010264 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 266264010265 Walker A/P-loop; other site 266264010266 ATP binding site; other site 266264010267 Q-loop/lid; other site 266264010268 ABC transporter signature motif; other site 266264010269 Walker B; other site 266264010270 D-loop; other site 266264010271 H-loop/switch region; other site 266264010272 choline dehydrogenase; Validated; Region: PRK02106 266264010273 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 266264010274 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 266264010275 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 266264010276 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 266264010277 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 266264010278 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 266264010279 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 266264010280 DNA binding residues; other site 266264010281 dimer interface; other site 266264010282 copper binding site; other site 266264010283 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 266264010284 metal-binding site; other site 266264010285 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 266264010286 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 266264010287 metal-binding site; other site 266264010288 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264010289 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; cl11391 266264010290 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 266264010291 metal-binding site; other site 266264010292 Surface antigen; Region: Surface_Ag_2; cl01155 266264010293 ornithine cyclodeaminase; Validated; Region: PRK07340 266264010294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010295 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...; Region: Aldo_ket_red; cd06660 266264010296 active site; other site 266264010297 catalytic tetrad; other site 266264010298 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 266264010299 Transglycosylase; Region: Transgly; cl07896 266264010300 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 266264010301 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 266264010302 YhhN-like protein; Region: YhhN; cl01505 266264010303 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 266264010304 MG2 domain; Region: A2M_N; pfam01835 266264010305 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 266264010306 Alpha-2-macroglobulin family; Region: A2M; pfam00207 266264010307 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010308 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 266264010309 cofactor binding site; other site 266264010310 metal binding site; other site 266264010311 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 266264010312 aromatic arch; other site 266264010313 DCoH dimer interaction site; other site 266264010314 DCoH /HNF-1 dimer interaction site; other site 266264010315 DCoH tetramer interaction site; other site 266264010316 substrate binding site; other site 266264010317 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264010318 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 266264010319 active site; other site 266264010320 phosphorylation site; other site 266264010321 intermolecular recognition site; other site 266264010322 dimerization interface; other site 266264010323 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...; Region: trans_reg_C; cd00383 266264010324 DNA binding site; other site 266264010325 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 266264010326 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 trans-...; Region: HisKA; cd00082 266264010327 dimer interface; other site 266264010328 phosphorylation site; other site 266264010329 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 266264010330 ATP binding site; other site 266264010331 Mg2+ binding site; other site 266264010332 G-X-G motif; other site 266264010333 SET domain; Region: SET; cl02566 266264010334 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 higher...; Region: HU_IHF; cd00591 266264010335 IHF dimer interface; other site 266264010336 IHF - DNA interface; other site 266264010337 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; cl01776 266264010338 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-...; Region: MIP; cl00200 266264010339 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,...; Region: OM_channels; cl00284 266264010340 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 266264010341 Predicted permeases [General function prediction only]; Region: RarD; COG2962 266264010342 DNA polymerase IV; Validated; Region: PRK02406 266264010343 Pol_IV_kappa, a member of the Y-family of DNA polymerases. Pol_Y's can transverse replication-blocking DNA lesions, such as cyclobutane pyrimidine dimers resulting from UV damage, at the cost of an elevated error rate. The Y-family has no 3'->5'...; Region: Pol_IV_kappa; cd03586 266264010344 DNA binding interface; other site 266264010345 active site residues; other site 266264010346 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 266264010347 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264010348 putative substrate translocation pore; other site 266264010349 Cache domain; Region: Cache_1; pfam02743 266264010350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264010351 metal binding site; other site 266264010352 active site; other site 266264010353 I-site; other site 266264010354 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...; Region: PBPb; cl11400 266264010355 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 266264010356 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 266264010357 CoenzymeA binding site; other site 266264010358 subunit interaction site; other site 266264010359 PHB binding site; other site 266264010360 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 266264010361 active site; other site 266264010362 nucleophile elbow; other site 266264010363 glutathione reductase; Validated; Region: PRK06116 266264010364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010365 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 266264010366 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 266264010367 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010368 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 266264010369 dimerization interface; other site 266264010370 amidase; Provisional; Region: PRK07487 266264010371 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; cl11426 266264010372 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 266264010373 Sodium:solute symporter family; Region: SSF; cl00456 266264010374 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 266264010375 active site; other site 266264010376 phosphorylation site; other site 266264010377 intermolecular recognition site; other site 266264010378 dimerization interface; other site 266264010379 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 266264010380 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 266264010381 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 266264010382 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264010383 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 trans-...; Region: HisKA; cd00082 266264010384 dimer interface; other site 266264010385 phosphorylation site; other site 266264010386 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 266264010387 ATP binding site; other site 266264010388 Mg2+ binding site; other site 266264010389 G-X-G motif; other site 266264010390 16S rRNA methyltransferase B; Provisional; Region: PRK10901 266264010391 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 266264010392 S-adenosylmethionine binding site; other site 266264010393 Peptidase family M48; Region: Peptidase_M48; cl12018 266264010394 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 266264010395 Formyl transferase; Region: Formyl_trans_N; cl00395 266264010396 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 266264010397 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...; Region: Pep_deformylase; cd00487 266264010398 active site; other site 266264010399 catalytic residues; other site 266264010400 metal binding site; other site 266264010401 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 266264010402 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 266264010403 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 266264010404 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 266264010405 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 266264010406 catalytic residues; other site 266264010407 DNA topoisomerase III; Validated; Region: PRK08173 266264010408 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:...; Region: TOPRIM_TopoIA_TopoIII; cd03362 266264010409 active site; other site 266264010410 putative interdomain interaction site; other site 266264010411 putative metal-binding site; other site 266264010412 putative nucleotide binding site; other site 266264010413 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...; Region: TOP1Ac; cd00186 266264010414 domain I; other site 266264010415 DNA binding groove; other site 266264010416 phosphate binding site; other site 266264010417 domain II; other site 266264010418 domain III; other site 266264010419 nucleotide binding site; other site 266264010420 catalytic site; other site 266264010421 domain IV; other site 266264010422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264010423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010424 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 266264010425 putative effector binding pocket; other site 266264010426 dimerization interface; other site 266264010427 Protein of unknown function (DUF466); Region: DUF466; cl01082 266264010428 Carbon starvation protein CstA; Region: CstA; cl00856 266264010429 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 266264010430 Cache domain; Region: Cache_2; pfam08269 266264010431 Histidine kinase; Region: HisKA_3; pfam07730 266264010432 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 266264010433 ATP binding site; other site 266264010434 Mg2+ binding site; other site 266264010435 G-X-G motif; other site 266264010436 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264010437 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 266264010438 active site; other site 266264010439 phosphorylation site; other site 266264010440 intermolecular recognition site; other site 266264010441 dimerization interface; other site 266264010442 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...; Region: LuxR_C_like; cd06170 266264010443 DNA binding residues; other site 266264010444 dimerization interface; other site 266264010445 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 266264010446 active site; other site 266264010447 substrate-binding site; other site 266264010448 metal-binding site; other site 266264010449 GTP binding site; other site 266264010450 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 266264010451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010452 MOSC domain; Region: MOSC; pfam03473 266264010453 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264010454 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 266264010455 Protein of unknown function, DUF399; Region: DUF399; cl01139 266264010456 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 266264010457 sensor protein QseC; Provisional; Region: PRK10337 266264010458 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 266264010459 ATP binding site; other site 266264010460 Mg2+ binding site; other site 266264010461 G-X-G motif; other site 266264010462 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264010463 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 266264010464 active site; other site 266264010465 phosphorylation site; other site 266264010466 intermolecular recognition site; other site 266264010467 dimerization interface; other site 266264010468 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...; Region: trans_reg_C; cd00383 266264010469 DNA binding site; other site 266264010470 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 266264010471 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 266264010472 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 266264010473 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264010474 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 266264010475 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 266264010476 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 266264010477 MMPL family; Region: MMPL; cl12044 266264010478 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 266264010479 Outer membrane efflux protein; Region: OEP; pfam02321 266264010480 Outer membrane efflux protein; Region: OEP; pfam02321 266264010481 Surface antigen; Region: Surface_Ag_2; cl01155 266264010482 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 266264010483 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 266264010484 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 266264010485 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264010486 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 266264010487 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 266264010488 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 266264010489 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 266264010490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010492 short chain dehydrogenase; Provisional; Region: PRK05650 266264010493 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264010494 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 266264010495 Predicted metal-dependent hydrolase; Region: Metal_hydrol; cl01490 266264010496 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 266264010497 DNA binding residues; other site 266264010498 putative dimer interface; other site 266264010499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010500 transcriptional regulator, ArgP family; Region: argP; TIGR03298 266264010501 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 266264010502 dimerization interface; other site 266264010503 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...; Region: PBPb; cl11400 266264010504 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_7; cd06910 266264010505 active site; other site 266264010506 Zn-binding site; other site 266264010507 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264010508 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264010509 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 266264010510 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 266264010511 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 266264010512 G1 box; other site 266264010513 GTP/Mg2+ binding site; other site 266264010514 Switch I region; other site 266264010515 G2 box; other site 266264010516 Switch II region; other site 266264010517 G3 box; other site 266264010518 G4 box; other site 266264010519 G5 box; other site 266264010520 CHAD domain; Region: CHAD; cl10506 266264010521 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 266264010522 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 266264010523 S-adenosylmethionine binding site; other site 266264010524 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01318 266264010525 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 266264010526 Domain of unknown function DUF37; Region: DUF37; cl00506 266264010527 Ribonuclease P; Region: Ribonuclease_P; cl00457 266264010528 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 266264010529 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 266264010530 DNA-binding site; other site 266264010531 RNA-binding motif; other site 266264010532 ParA-like protein; Provisional; Region: PHA02518 266264010533 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...; Region: ParA; cd02042 266264010534 P-loop; other site 266264010535 Magnesium ion binding site; other site 266264010536 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 266264010537 ParB-like nuclease domain; Region: ParBc; cl02129 266264010538 Phage integrase protein; Region: DUF3701; pfam12482 266264010539 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 266264010540 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 266264010541 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...; Region: LuxR_C_like; cd06170 266264010542 DNA binding residues; other site 266264010543 dimerization interface; other site 266264010544 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 266264010545 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...; Region: CAS_like; cl00184 266264010546 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...; Region: PBPb; cl11400 266264010547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010548 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264010549 lipid-transfer protein; Provisional; Region: PRK08256 266264010550 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264010551 active site; other site 266264010552 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 266264010553 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264010554 Isochorismatase family; Region: Isochorismatase; pfam00857 266264010555 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 266264010556 catalytic triad; other site 266264010557 dimer interface; other site 266264010558 conserved cis-peptide bond; other site 266264010559 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 266264010560 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 266264010561 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 266264010562 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264010563 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...; Region: LuxR_C_like; cd06170 266264010564 DNA binding residues; other site 266264010565 dimerization interface; other site 266264010566 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 266264010567 active site; other site 266264010568 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 266264010569 Bacterial sugar transferase; Region: Bac_transf; cl00939 266264010570 Phosphopantetheine attachment site; Region: PP-binding; cl09936 266264010571 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264010572 active site; other site 266264010573 hypothetical protein; Validated; Region: PRK07080 266264010574 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-...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 266264010575 dimer interface; other site 266264010576 motif 1; other site 266264010577 active site; other site 266264010578 motif 2; other site 266264010579 motif 3; other site 266264010580 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 266264010581 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 266264010582 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 266264010583 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 266264010584 ligand binding site; other site 266264010585 flexible hinge region; other site 266264010586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010587 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 266264010588 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 266264010589 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 266264010590 Substrate binding site; other site 266264010591 Cupin domain; Region: Cupin_2; cl09118 266264010592 tyrosine kinase; Provisional; Region: PRK11519 266264010593 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264010594 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 266264010595 Nucleotide binding site; other site 266264010596 P loop; other site 266264010597 DTAP/Switch II; other site 266264010598 Switch I; other site 266264010599 hydrolase, ortholog 1, exosortase system type 1 associated; Region: hydr1_PEP; TIGR03100 266264010600 hydrolase, ortholog 1, exosortase system type 1 associated; Region: hydr1_PEP; TIGR03100 266264010601 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 266264010602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010603 short chain dehydrogenase; Provisional; Region: PRK05650 266264010604 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 266264010605 tyrosine kinase; Provisional; Region: PRK11519 266264010606 Chain length determinant protein; Region: Wzz; cl01623 266264010607 Low molecular weight phosphatase family;; Region: LMWPc; cd00115 266264010608 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 266264010609 Active site; other site 266264010610 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 266264010611 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 266264010612 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 266264010613 YdjC-like protein; Region: YdjC; cl01344 266264010614 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 266264010615 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 266264010616 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 266264010617 putative colanic acid biosynthesis acetyltransferase WcaF; Provisional; Region: PRK10502 266264010618 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 266264010619 putative trimer interface; other site 266264010620 putative active site; other site 266264010621 putative substrate binding site; other site 266264010622 putative CoA binding site; other site 266264010623 putative glycosyl transferase; Provisional; Region: PRK10307 266264010624 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 266264010625 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 266264010626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010628 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 266264010629 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264010630 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...; Region: LuxR_C_like; cd06170 266264010631 DNA binding residues; other site 266264010632 dimerization interface; other site 266264010633 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 266264010634 oligomer interface; other site 266264010635 active site; other site 266264010636 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264010637 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 3...; Region: IPMI_Swivel; cd01577 266264010638 substrate binding site; other site 266264010639 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 266264010640 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 266264010641 substrate binding site; other site 266264010642 ligand binding site; other site 266264010643 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...; Region: PBPb; cl11400 266264010644 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 266264010645 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264010646 DNA-binding site; other site 266264010647 UTRA domain; Region: UTRA; cl06649 266264010648 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...; Region: Peptidase_C39G; cd02423 266264010649 putative active site; other site 266264010650 IncA protein; Region: IncA; pfam04156 266264010651 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264010652 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 266264010653 putative ligand binding site; other site 266264010654 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 266264010655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010656 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 266264010657 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010658 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 266264010659 putative dimerization interface; other site 266264010660 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 266264010661 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...; Region: PBPb; cl11400 266264010662 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 266264010663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010664 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 266264010665 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264010666 Coenzyme A binding pocket; other site 266264010667 AMP nucleosidase; Provisional; Region: PRK08292 266264010668 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 266264010669 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 266264010670 Surface antigen; Region: Surface_Ag_2; cl01155 266264010671 2-isopropylmalate synthase; Validated; Region: PRK03739 266264010672 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 266264010673 active site; other site 266264010674 catalytic residues; other site 266264010675 metal binding site; other site 266264010676 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 266264010677 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 266264010678 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 266264010679 G1 box; other site 266264010680 GTP/Mg2+ binding site; other site 266264010681 Switch I region; other site 266264010682 G2 box; other site 266264010683 G3 box; other site 266264010684 Switch II region; other site 266264010685 G4 box; other site 266264010686 G5 box; other site 266264010687 Nucleoside recognition; Region: Gate; cl00486 266264010688 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 266264010689 Nucleoside recognition; Region: Gate; cl00486 266264010690 FeoA domain; Region: FeoA; cl00838 266264010691 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010692 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 266264010693 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 266264010694 putative dimerization interface; other site 266264010695 putative substrate binding pocket; other site 266264010696 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264010697 active site; other site 266264010698 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...; Region: PBPb; cl11400 266264010699 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264010700 L-lactate permease; Provisional; Region: PRK10420 266264010701 L-lactate permease; Region: Lactate_perm; cl00701 266264010702 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 266264010703 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 266264010704 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 alpha-.; Region: HCP_like; cl00255 266264010705 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 266264010706 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 266264010707 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 266264010708 Cysteine-rich domain; Region: CCG; pfam02754 266264010709 Cysteine-rich domain; Region: CCG; pfam02754 266264010710 Transcriptional regulators [Transcription]; Region: FadR; COG2186 266264010711 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264010712 DNA-binding site; other site 266264010713 FCD domain; Region: FCD; cl11656 266264010714 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 266264010715 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; cl09205 266264010716 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 266264010717 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 266264010718 putative deacylase active site; other site 266264010719 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264010720 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010721 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 266264010722 putative effector binding pocket; other site 266264010723 dimerization interface; other site 266264010724 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 266264010725 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264010726 putative substrate translocation pore; other site 266264010727 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264010728 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264010729 active site; other site 266264010730 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 266264010731 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 266264010732 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 266264010733 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 266264010734 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 266264010735 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 266264010736 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 266264010737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264010738 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 266264010739 AlkA N-terminal domain; Region: AlkA_N; pfam06029 266264010740 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 266264010741 minor groove reading motif; other site 266264010742 helix-hairpin-helix signature motif; other site 266264010743 substrate binding pocket; other site 266264010744 active site; other site 266264010745 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 266264010746 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 266264010747 DNA binding site; other site 266264010748 active site; other site 266264010749 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 266264010750 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 266264010751 LysE type translocator; Region: LysE; cl00565 266264010752 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264010753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010754 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 266264010755 dimerization interface; other site 266264010756 YcgR protein; Region: YcgR; pfam07317 266264010757 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 266264010758 PilZ domain; Region: PilZ; cl01260 266264010759 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 266264010760 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010761 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264010762 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 266264010763 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 266264010764 active site; other site 266264010765 nucleophile elbow; other site 266264010766 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 266264010767 Surface antigen; Region: Bac_surface_Ag; cl03097 266264010768 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 266264010769 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 266264010770 NAD-dependent deacetylase; Provisional; Region: PRK14138 266264010771 NAD+ binding site; other site 266264010772 substrate binding site; other site 266264010773 Zn binding site; other site 266264010774 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 266264010775 SlyX; Region: SlyX; cl01090 266264010776 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264010777 argininosuccinate synthase; Validated; Region: PRK05370 266264010778 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 266264010779 Ligand Binding Site; other site 266264010780 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...; Region: Aldo_ket_red; cd06660 266264010781 active site; other site 266264010782 catalytic tetrad; other site 266264010783 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 266264010784 Transglycosylase; Region: Transgly; cl07896 266264010785 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 266264010786 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 266264010787 elongation factor G; Reviewed; Region: PRK00007 266264010788 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 266264010789 G1 box; other site 266264010790 putative GEF interaction site; other site 266264010791 GTP/Mg2+ binding site; other site 266264010792 Switch I region; other site 266264010793 G2 box; other site 266264010794 G3 box; other site 266264010795 Switch II region; other site 266264010796 G4 box; other site 266264010797 G5 box; other site 266264010798 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...; Region: EFG_mtEFG_II; cd04088 266264010799 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...; Region: EFG_mtEFG1_IV; cd01434 266264010800 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...; Region: EFG_mtEFG_C; cd03713 266264010801 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 266264010802 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 266264010803 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 266264010804 Cache domain; Region: Cache_2; pfam08269 266264010805 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 266264010806 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264010807 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 266264010808 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 266264010809 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 266264010810 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 266264010811 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 266264010812 active site residue; other site 266264010813 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 266264010814 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264010815 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 266264010816 active site; other site 266264010817 phosphorylation site; other site 266264010818 intermolecular recognition site; other site 266264010819 dimerization interface; other site 266264010820 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...; Region: LuxR_C_like; cd06170 266264010821 DNA binding residues; other site 266264010822 dimerization interface; other site 266264010823 OsmC-like protein; Region: OsmC; cl00767 266264010824 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 266264010825 OsmC-like protein; Region: OsmC; cl00767 266264010826 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010827 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 266264010828 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...; Region: Tryp_SPc; cl00149 266264010829 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 C-...; Region: PDZ_serine_protease; cd00987 266264010830 protein binding site; other site 266264010831 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 C-...; Region: PDZ_serine_protease; cd00987 266264010832 protein binding site; other site 266264010833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264010834 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264010835 putative substrate translocation pore; other site 266264010836 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264010837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010838 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 266264010839 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 266264010840 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 266264010841 Protein of unknown function DUF58; Region: DUF58; pfam01882 266264010842 MoxR-like ATPases [General function prediction only]; Region: COG0714 266264010843 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...; Region: AAA; cd00009 266264010844 Walker A motif; other site 266264010845 ATP binding site; other site 266264010846 Walker B motif; other site 266264010847 arginine finger; other site 266264010848 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 266264010849 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264010850 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264010851 DNA-binding site; other site 266264010852 FCD domain; Region: FCD; cl11656 266264010853 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 266264010854 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 266264010855 catalytic loop; other site 266264010856 iron binding site; other site 266264010857 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,...; Region: flavin_oxioreductase; cd06189 266264010858 FAD binding pocket; other site 266264010859 FAD binding motif; other site 266264010860 phosphate binding motif; other site 266264010861 beta-alpha-beta structure motif; other site 266264010862 NAD binding pocket; other site 266264010863 Domain of unknown function (DUF336); Region: DUF336; cl01249 266264010864 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 266264010865 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 266264010866 NAD(P) binding site; other site 266264010867 catalytic residues; other site 266264010868 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl00527 266264010869 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 266264010870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010871 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 266264010872 catalytic loop; other site 266264010873 iron binding site; other site 266264010874 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 266264010875 catalytic loop; other site 266264010876 iron binding site; other site 266264010877 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 266264010878 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010879 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264010880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264010881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010882 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 266264010883 putative effector binding pocket; other site 266264010884 dimerization interface; other site 266264010885 YGGT family; Region: YGGT; cl00508 266264010886 YGGT family; Region: YGGT; cl00508 266264010887 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010888 Dienelactone hydrolase family; Region: DLH; pfam01738 266264010889 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 266264010890 Protein of unknown function (DUF1458); Region: DUF1458; cl01328 266264010891 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 266264010892 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 266264010893 Flp/Fap pilin component; Region: Flp_Fap; cl01585 266264010894 TadE-like protein; Region: TadE; pfam07811 266264010895 SAF domain; Region: SAF; cl00555 266264010896 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 266264010897 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 266264010898 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 266264010899 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 266264010900 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...; Region: CpaE_like; cd03111 266264010901 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 266264010902 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...; Region: VirB11-like_ATPase; cd01130 266264010903 ATP binding site; other site 266264010904 Walker A motif; other site 266264010905 hexamer interface; other site 266264010906 Walker B motif; other site 266264010907 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264010908 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264010909 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 266264010910 binding surface; other site 266264010911 TPR motif; other site 266264010912 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 266264010913 Predicted membrane protein [Function unknown]; Region: COG4655 266264010914 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 266264010915 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...; Region: AAA; cd00009 266264010916 Walker A motif; other site 266264010917 ATP binding site; other site 266264010918 Walker B motif; other site 266264010919 arginine finger; other site 266264010920 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264010921 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 266264010922 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 266264010923 active site; other site 266264010924 metal binding site; other site 266264010925 DNA binding site; other site 266264010926 Type 5 capsule protein repressor C terminal; Region: SbcD_C; pfam12320 266264010927 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 266264010928 Walker A/P-loop; other site 266264010929 ATP binding site; other site 266264010930 Q-loop/lid; other site 266264010931 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 266264010932 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264010933 ABC transporter signature motif; other site 266264010934 Walker B; other site 266264010935 D-loop; other site 266264010936 H-loop/switch region; other site 266264010937 hypothetical protein; Provisional; Region: PRK09133 266264010938 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264010939 Coenzyme A transferase; Region: CoA_trans; cl00773 266264010940 Coenzyme A transferase; Region: CoA_trans; cl00773 266264010941 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 266264010942 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 266264010943 dimer interface; other site 266264010944 active site; other site 266264010945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010946 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264010947 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...; Region: PBPb; cl11400 266264010948 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264010949 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 266264010950 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 266264010951 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...; Region: NPD_like; cd04730 266264010952 FMN binding site; other site 266264010953 substrate binding site; other site 266264010954 putative catalytic residue; other site 266264010955 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 266264010956 Int/Topo IB signature motif; other site 266264010957 DNA binding site; other site 266264010958 active site; other site 266264010959 catalytic residues; other site 266264010960 UDP-glucose 4-epimerase; Region: PLN02240 266264010961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264010962 H-NS histone family; Region: Histone_HNS; pfam00816 266264010963 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 266264010964 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264010965 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264010966 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264010967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264010968 metal binding site; other site 266264010969 active site; other site 266264010970 I-site; other site 266264010971 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 266264010972 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 266264010973 active site; other site 266264010974 phosphorylation site; other site 266264010975 intermolecular recognition site; other site 266264010976 dimerization interface; other site 266264010977 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 266264010978 putative CheA interaction surface; other site 266264010979 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 266264010980 PAS fold; Region: PAS_3; pfam08447 266264010981 putative active site; other site 266264010982 heme pocket; other site 266264010983 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264010984 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 266264010985 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264010986 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 266264010987 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264010988 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 266264010989 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 266264010990 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 266264010991 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 266264010992 flagellar motor protein MotB; Validated; Region: motB; PRK09041 266264010993 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 266264010994 ligand binding site; other site 266264010995 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 266264010996 putative binding surface; other site 266264010997 active site; other site 266264010998 CheY binding; Region: CheY-binding; pfam09078 266264010999 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 266264011000 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 266264011001 ATP binding site; other site 266264011002 Mg2+ binding site; other site 266264011003 G-X-G motif; other site 266264011004 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 266264011005 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 266264011006 putative CheA interaction surface; other site 266264011007 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 266264011008 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 266264011009 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; cl12011 266264011010 CheD; Region: CheD; cl00810 266264011011 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 266264011012 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 266264011013 active site; other site 266264011014 phosphorylation site; other site 266264011015 intermolecular recognition site; other site 266264011016 dimerization interface; other site 266264011017 CheB methylesterase; Region: CheB_methylest; pfam01339 266264011018 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 266264011019 active site; other site 266264011020 phosphorylation site; other site 266264011021 intermolecular recognition site; other site 266264011022 dimerization interface; other site 266264011023 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 266264011024 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264011025 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 266264011026 hypothetical protein; Provisional; Region: PRK11239 266264011027 Protein of unknown function, DUF480; Region: DUF480; cl01209 266264011028 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 266264011029 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 266264011030 FHIPEP family; Region: FHIPEP; cl07980 266264011031 secretion system apparatus protein SsaV; Provisional; Region: PRK12720 266264011032 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 266264011033 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264011034 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 266264011035 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras,.; Region: Ras_like_GTPase; cl10444 266264011036 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 266264011037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264011038 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 266264011039 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...; Region: Sigma70_r4; cd06171 266264011040 DNA binding residues; other site 266264011041 Flagellar protein FlhE; Region: FlhE; pfam06366 266264011042 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...; Region: gram_neg_porins; cd00342 266264011043 trimer interface; other site 266264011044 eyelet of channel; other site 266264011045 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...; Region: metallo-dependent_hydrolases; cl00281 266264011046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 266264011047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011048 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 266264011049 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011050 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 266264011051 putative dimerization interface; other site 266264011052 benzoate transport; Region: 2A0115; TIGR00895 266264011053 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011054 putative substrate translocation pore; other site 266264011055 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011056 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 266264011057 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 266264011058 putative active site; other site 266264011059 Fe(II) binding site; other site 266264011060 putative dimer interface; other site 266264011061 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 266264011062 putative dimer interface; other site 266264011063 putative N- and C-terminal domain interface; other site 266264011064 Rubredoxin [Energy production and conversion]; Region: COG1773 266264011065 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...; Region: rubredoxin; cd00730 266264011066 iron binding site; other site 266264011067 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 266264011068 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264011069 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 266264011070 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 266264011071 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011072 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 266264011073 substrate binding pocket; other site 266264011074 dimerization interface; other site 266264011075 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 266264011076 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264011077 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 266264011078 dimer interface; other site 266264011079 FMN binding site; other site 266264011080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264011081 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011082 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 266264011083 putative effector binding pocket; other site 266264011084 dimerization interface; other site 266264011085 high affinity sulphate transporter 1; Region: sulP; TIGR00815 266264011086 Permease family; Region: Xan_ur_permease; cl00967 266264011087 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 266264011088 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...; Region: PBPb; cl11400 266264011089 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 266264011090 nucleoside/Zn binding site; other site 266264011091 dimer interface; other site 266264011092 catalytic motif; other site 266264011093 Cache domain; Region: Cache_1; pfam02743 266264011094 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 266264011095 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 connected by an extended linker. The...; Region: HAMP; cd06225 266264011096 dimerization interface; other site 266264011097 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 266264011098 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264011099 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 266264011100 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 266264011101 Permease family; Region: Xan_ur_permease; cl00967 266264011102 Late embryogenesis abundant protein; Region: LEA_2; cl12118 266264011103 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 266264011104 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264011105 FAD binding site; other site 266264011106 substrate binding site; other site 266264011107 catalytic base; other site 266264011108 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 266264011109 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264011110 active site; other site 266264011111 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 266264011112 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 266264011113 Fusaric acid resistance protein family; Region: FUSC; pfam04632 266264011114 hypothetical membrane protein, TIGR01666; Region: YCCS 266264011115 FlgN protein; Region: FlgN; cl09176 266264011116 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 266264011117 SAF domain; Region: SAF; cl00555 266264011118 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl09471 266264011119 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 266264011120 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 266264011121 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 266264011122 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 266264011123 Flagellar hook capping protein; Region: FlgD; cl04347 266264011124 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK12633 266264011125 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 266264011126 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 266264011127 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 266264011128 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 266264011129 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 266264011130 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 266264011131 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 266264011132 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 266264011133 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 266264011134 Flagellar L-ring protein; Region: FlgH; cl00905 266264011135 Flagellar P-ring protein; Region: FlgI; cl03458 266264011136 Flagellar basal-body P-ring protein [Cell motility and secretion]; Region: FlgI; COG1706 266264011137 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12712 266264011138 Rod binding protein; Region: Rod-binding; cl01626 266264011139 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 266264011140 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 266264011141 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 266264011142 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 266264011143 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 266264011144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264011145 metal binding site; other site 266264011146 active site; other site 266264011147 I-site; other site 266264011148 Predicted transcriptional regulator [Transcription]; Region: COG2378 266264011149 Domain of unknown function (DUF1994); Region: DUF1994; pfam09352 266264011150 MAEBL; Provisional; Region: PTZ00121 266264011151 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 266264011152 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 266264011153 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 266264011154 homotrimer interaction site; other site 266264011155 putative active site; other site 266264011156 Bacterial membrane flanked domain; Region: DUF304; cl01348 266264011157 Glutaminase; Region: Glutaminase; cl00907 266264011158 Integrase core domain; Region: rve; cl01316 266264011159 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 266264011160 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; cl01578 266264011161 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 266264011162 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 266264011163 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264011164 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 266264011165 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 266264011166 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 266264011167 DNA binding site; other site 266264011168 active site; other site 266264011169 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 266264011170 endonuclease III; Region: ENDO3c; smart00478 266264011171 minor groove reading motif; other site 266264011172 helix-hairpin-helix signature motif; other site 266264011173 substrate binding pocket; other site 266264011174 active site; other site 266264011175 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 266264011176 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 266264011177 DNA binding site; other site 266264011178 active site; other site 266264011179 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 266264011180 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; cl01116 266264011181 putative transposase OrfB; Reviewed; Region: PHA02517 266264011182 Integrase core domain; Region: rve; cl01316 266264011183 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 266264011184 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264011185 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264011186 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 266264011187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011189 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...; Region: 4HBT; cd00586 266264011190 active site; other site 266264011191 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 266264011192 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 266264011193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011194 putative substrate translocation pore; other site 266264011195 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 266264011196 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...; Region: PBPb; cl11400 266264011197 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264011198 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...; Region: gram_neg_porins; cd00342 266264011199 trimer interface; other site 266264011200 eyelet of channel; other site 266264011201 acyl-CoA synthetase; Validated; Region: PRK06188 266264011202 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264011203 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...; Region: PBPb; cl11400 266264011204 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264011205 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264011206 active site; other site 266264011207 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264011208 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...; Region: PBPb; cl11400 266264011209 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 266264011210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011211 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 266264011212 putative dimerization interface; other site 266264011213 putative substrate binding pocket; other site 266264011214 lipase chaperone; Provisional; Region: PRK01294 266264011215 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 266264011216 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 266264011217 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 266264011218 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...; Region: PBPb; cl11400 266264011219 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 266264011220 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264011221 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264011222 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011223 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 266264011224 putative dimerization interface; other site 266264011225 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264011226 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 266264011227 substrate binding site; other site 266264011228 oxyanion hole (OAH) forming residues; other site 266264011229 trimer interface; other site 266264011230 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...; Region: PBPb; cl11400 266264011231 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 266264011232 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264011233 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264011234 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264011235 active site; other site 266264011236 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 266264011237 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264011238 active site; other site 266264011239 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 266264011240 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264011241 active site; other site 266264011242 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 266264011243 DUF35 OB-fold domain; Region: DUF35; pfam01796 266264011244 enoyl-CoA hydratase; Region: PLN02864 266264011245 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 266264011246 dimer interaction site; other site 266264011247 substrate-binding tunnel; other site 266264011248 active site; other site 266264011249 catalytic site; other site 266264011250 substrate binding site; other site 266264011251 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264011252 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264011253 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264011254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011255 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 266264011256 putative dimerization interface; other site 266264011257 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...; Region: PBPb; cl11400 266264011258 (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 266264011259 active site; other site 266264011260 catalytic site; other site 266264011261 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...; Region: PBPb; cl11400 266264011262 Peptidase M15; Region: Peptidase_M15_3; cl01194 266264011263 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 266264011264 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 266264011265 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264011266 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264011267 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264011268 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264011269 active site; other site 266264011270 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 266264011271 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264011272 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 266264011273 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 266264011274 dimer interface; other site 266264011275 pyridoxal 5'-phosphate binding site; other site 266264011276 catalytic residue; other site 266264011277 Cytochrome P450; Region: p450; cl12078 266264011278 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 266264011279 Sulfite exporter TauE/SafE; Region: TauE; cl00498 266264011280 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 266264011281 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 266264011282 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 266264011283 catalytic loop; other site 266264011284 iron binding site; other site 266264011285 Uncharacterized conserved protein [Function unknown]; Region: COG1739 266264011286 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 266264011287 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 266264011288 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 266264011289 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; cl12011 266264011290 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 266264011291 RES domain; Region: RES; cl02411 266264011292 Sulfite exporter TauE/SafE; Region: TauE; cl00498 266264011293 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...; Region: PBPb; cl11400 266264011294 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 266264011295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011296 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 266264011297 putative dimerization interface; other site 266264011298 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264011299 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 266264011300 Outer membrane efflux protein; Region: OEP; pfam02321 266264011301 Outer membrane efflux protein; Region: OEP; pfam02321 266264011302 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264011303 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 266264011304 E3 interaction surface; other site 266264011305 lipoyl attachment site; other site 266264011306 GAF domain; Region: GAF; cl00853 266264011307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264011308 metal binding site; other site 266264011309 active site; other site 266264011310 I-site; other site 266264011311 Tannase and feruloyl esterase; Region: Tannase; pfam07519 266264011312 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 266264011313 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 266264011314 Uncharacterized conserved protein [Function unknown]; Region: COG2128 266264011315 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264011316 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 266264011317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264011318 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...; Region: Sigma70_r4; cl01055 266264011319 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 266264011320 S-adenosylmethionine binding site; other site 266264011321 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 266264011322 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264011323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011325 conserved hypothetical protein TIGR01777; Region: yfcH 266264011326 Domain of unknown function (DUF1731); Region: DUF1731; pfam08338 266264011327 Protein of unknown function, DUF393; Region: DUF393; cl01136 266264011328 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 266264011329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011330 Predicted transcriptional regulators [Transcription]; Region: COG1510 266264011331 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 266264011332 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 266264011333 active site; other site 266264011334 non-prolyl cis peptide bond; other site 266264011335 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...; Region: PBPb; cl11400 266264011336 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 266264011337 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...; Region: ABC_MetN_methionine_transporter; cd03258 266264011338 Walker A/P-loop; other site 266264011339 ATP binding site; other site 266264011340 Q-loop/lid; other site 266264011341 ABC transporter signature motif; other site 266264011342 Walker B; other site 266264011343 D-loop; other site 266264011344 H-loop/switch region; other site 266264011345 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...; Region: TM_PBP2; cd06261 266264011346 dimer interface; other site 266264011347 conserved gate region; other site 266264011348 ABC-ATPase subunit interface; other site 266264011349 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264011350 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 266264011351 Flavin binding site; other site 266264011352 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 266264011353 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 266264011354 active site residue; other site 266264011355 selenophosphate synthetase; Provisional; Region: PRK00943 266264011356 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 266264011357 dimerization interface; other site 266264011358 putative ATP binding site; other site 266264011359 Rhomboid family; Region: Rhomboid; cl11446 266264011360 LysE type translocator; Region: LysE; cl00565 266264011361 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 266264011362 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011363 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 266264011364 dimerization interface; other site 266264011365 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 266264011366 Chromate transporter; Region: Chromate_transp; cl00902 266264011367 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 266264011368 Chromate transporter; Region: Chromate_transp; cl00902 266264011369 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 266264011370 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 266264011371 Cytochrome P450; Region: p450; cl12078 266264011372 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 266264011373 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 266264011374 FMN binding site; other site 266264011375 active site; other site 266264011376 substrate binding site; other site 266264011377 catalytic residue; other site 266264011378 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 266264011379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011380 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 266264011381 putative effector binding pocket; other site 266264011382 dimerization interface; other site 266264011383 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 266264011384 Transcriptional regulators [Transcription]; Region: MarR; COG1846 266264011385 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011386 short chain dehydrogenase; Provisional; Region: PRK12937 266264011387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011388 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264011389 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011390 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 266264011391 putative effector binding pocket; other site 266264011392 dimerization interface; other site 266264011393 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 266264011394 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 266264011395 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 266264011396 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 266264011397 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 266264011398 osmolarity response regulator; Provisional; Region: ompR; PRK09468 266264011399 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 266264011400 active site; other site 266264011401 phosphorylation site; other site 266264011402 intermolecular recognition site; other site 266264011403 dimerization interface; other site 266264011404 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...; Region: trans_reg_C; cd00383 266264011405 DNA binding site; other site 266264011406 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 266264011407 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 connected by an extended linker. The...; Region: HAMP; cd06225 266264011408 dimerization interface; other site 266264011409 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 trans-...; Region: HisKA; cd00082 266264011410 dimer interface; other site 266264011411 phosphorylation site; other site 266264011412 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 266264011413 ATP binding site; other site 266264011414 Mg2+ binding site; other site 266264011415 G-X-G motif; other site 266264011416 Transcriptional regulators [Transcription]; Region: MarR; COG1846 266264011417 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011418 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 266264011419 phenylhydantoinase; Validated; Region: PRK08323 266264011420 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like...; Region: D-HYD; cd01314 266264011421 tetramer interface; other site 266264011422 active site; other site 266264011423 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 266264011424 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011425 d-galactonate transporter; Region: 2A0114; TIGR00893 266264011426 putative substrate translocation pore; other site 266264011427 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264011428 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264011429 DNA-binding site; other site 266264011430 FCD domain; Region: FCD; cl11656 266264011431 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 266264011432 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 266264011433 homotrimer interaction site; other site 266264011434 putative active site; other site 266264011435 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264011436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264011438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011439 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 266264011440 putative effector binding pocket; other site 266264011441 dimerization interface; other site 266264011442 Protein of unknown function (DUF535); Region: DUF535; cl01128 266264011443 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 266264011444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264011445 DNA-binding site; other site 266264011446 UTRA domain; Region: UTRA; cl06649 266264011447 hypothetical protein; Validated; Region: PRK07586 266264011448 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 266264011449 PYR/PP interface; other site 266264011450 dimer interface; other site 266264011451 TPP binding site; other site 266264011452 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 benzoylformate to benzaldehyde and carbon dioxide. This...; Region: TPP_BFDC; cd02002 266264011453 TPP-binding site; other site 266264011454 dimer interface; other site 266264011455 Uncharacterized conserved protein [Function unknown]; Region: COG3777 266264011456 SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The alpha- and...; Region: SAV4209; cd03455 266264011457 putative active site; other site 266264011458 putative catalytic site; other site 266264011459 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 266264011460 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264011461 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264011462 active site; other site 266264011463 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...; Region: PBPb; cl11400 266264011464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264011465 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011466 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 266264011467 putative dimerization interface; other site 266264011468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011469 short chain dehydrogenase; Validated; Region: PRK08264 266264011470 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 266264011471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264011472 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 266264011473 Protein of unknown function (DUF444); Region: DUF444; pfam04285 266264011474 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 266264011475 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; cl01044 266264011476 SpoVR like protein; Region: SpoVR; pfam04293 266264011477 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...; Region: LuxR_C_like; cd06170 266264011478 DNA binding residues; other site 266264011479 dimerization interface; other site 266264011480 Mechanosensitive ion channel; Region: MS_channel; pfam00924 266264011481 LysE type translocator; Region: LysE; cl00565 266264011482 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 266264011483 catalytic core; other site 266264011484 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...; Region: PBPb; cl11400 266264011485 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264011486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011487 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 266264011488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011489 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264011490 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...; Region: PBPb; cl11400 266264011491 Uncharacterized conserved protein [Function unknown]; Region: COG5361 266264011492 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 266264011493 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 266264011494 Uncharacterized conserved protein [Function unknown]; Region: COG5361 266264011495 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 266264011496 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 266264011497 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...; Region: PBPb; cl11400 266264011498 DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved...; Region: DEDDh; cd06127 266264011499 active site; other site 266264011500 substrate binding site; other site 266264011501 catalytic site; other site 266264011502 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 266264011503 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 266264011504 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 266264011505 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 266264011506 MMPL family; Region: MMPL; cl12044 266264011507 NodT family; Region: outer_NodT; TIGR01845 266264011508 Outer membrane efflux protein; Region: OEP; pfam02321 266264011509 Outer membrane efflux protein; Region: OEP; pfam02321 266264011510 Arginase family; Region: Arginase; cl00306 266264011511 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...; Region: PBPb; cl11400 266264011512 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264011513 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264011514 Integrase core domain; Region: rve; cl01316 266264011515 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...; Region: PBPb; cl11400 266264011516 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264011517 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 266264011518 active site; other site 266264011519 phosphorylation site; other site 266264011520 intermolecular recognition site; other site 266264011521 dimerization interface; other site 266264011522 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...; Region: trans_reg_C; cd00383 266264011523 DNA binding site; other site 266264011524 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 266264011525 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 266264011526 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 trans-...; Region: HisKA; cd00082 266264011527 dimer interface; other site 266264011528 phosphorylation site; other site 266264011529 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 266264011530 ATP binding site; other site 266264011531 Mg2+ binding site; other site 266264011532 G-X-G motif; other site 266264011533 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264011534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011535 putative substrate translocation pore; other site 266264011536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011537 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011538 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 266264011539 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 266264011540 catalytic triad; other site 266264011541 transcriptional regulator RcsB; Provisional; Region: PRK10840 266264011542 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 266264011543 active site; other site 266264011544 phosphorylation site; other site 266264011545 intermolecular recognition site; other site 266264011546 dimerization interface; other site 266264011547 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....; Region: LuxR_C_like; cd06170 266264011548 DNA binding residues; other site 266264011549 dimerization interface; other site 266264011550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264011551 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011552 putative transposase OrfB; Reviewed; Region: PHA02517 266264011553 Integrase core domain; Region: rve; cl01316 266264011554 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; cl01116 266264011555 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 266264011556 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 266264011557 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 266264011558 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 266264011559 ligand binding site; other site 266264011560 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 266264011561 putative switch regulator; other site 266264011562 non-specific DNA interactions; other site 266264011563 DNA binding site; other site 266264011564 sequence specific DNA binding site; other site 266264011565 putative cAMP binding site; other site 266264011566 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 266264011567 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 266264011568 metabolite-proton symporter; Region: 2A0106; TIGR00883 266264011569 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011570 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011571 conserved hypothetical protein TIGR03545; Region: TIGR03545 266264011572 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 266264011573 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 266264011574 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 266264011575 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 266264011576 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 266264011577 ligand binding site; other site 266264011578 Rubredoxin [Energy production and conversion]; Region: COG1773 266264011579 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...; Region: rubredoxin; cd00730 266264011580 iron binding site; other site 266264011581 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 266264011582 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 266264011583 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 266264011584 Cytochrome c; Region: Cytochrom_C; cl11414 266264011585 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 266264011586 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...; Region: Heme_Cu_Oxidase_I; cl00275 266264011587 D-pathway; other site 266264011588 Low-spin heme binding site; other site 266264011589 Putative water exit pathway; other site 266264011590 Binuclear center (active site); other site 266264011591 K-pathway; other site 266264011592 Putative proton exit pathway; other site 266264011593 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...; Region: Heme_Cu_Oxidase_III_2; cd02865 266264011594 Subunit I/III interface; other site 266264011595 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...; Region: Heme_Cu_Oxidase_III_1; cd02864 266264011596 Subunit I/III interface; other site 266264011597 Predicted small integral membrane protein [Function unknown]; Region: COG5605 266264011598 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 266264011599 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 266264011600 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 266264011601 tetramerization interface; other site 266264011602 NAD(P) binding site; other site 266264011603 catalytic residues; other site 266264011604 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 266264011605 MatE; Region: MatE; pfam01554 266264011606 MatE; Region: MatE; pfam01554 266264011607 Tripartite tricarboxylate transporter TctB family; Region: DUF1468; pfam07331 266264011608 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 266264011609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011610 Peptidase M66; Region: Peptidase_M66; pfam10462 266264011611 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 266264011612 active site; other site 266264011613 phosphorylation site; other site 266264011614 intermolecular recognition site; other site 266264011615 dimerization interface; other site 266264011616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264011617 metal binding site; other site 266264011618 active site; other site 266264011619 I-site; other site 266264011620 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 266264011621 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 266264011622 active site; other site 266264011623 phosphorylation site; other site 266264011624 intermolecular recognition site; other site 266264011625 dimerization interface; other site 266264011626 CheB methylesterase; Region: CheB_methylest; pfam01339 266264011627 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 266264011628 putative binding surface; other site 266264011629 active site; other site 266264011630 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 266264011631 ATP binding site; other site 266264011632 Mg2+ binding site; other site 266264011633 G-X-G motif; other site 266264011634 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 266264011635 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 266264011636 active site; other site 266264011637 phosphorylation site; other site 266264011638 intermolecular recognition site; other site 266264011639 dimerization interface; other site 266264011640 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 266264011641 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 266264011642 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 266264011643 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; cl12011 266264011644 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 266264011645 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 266264011646 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264011647 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264011648 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264011649 metal binding site; other site 266264011650 active site; other site 266264011651 I-site; other site 266264011652 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 266264011653 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264011654 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 266264011655 putative ligand binding site; other site 266264011656 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264011657 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 266264011658 Walker A/P-loop; other site 266264011659 ATP binding site; other site 266264011660 Q-loop/lid; other site 266264011661 ABC transporter signature motif; other site 266264011662 Walker B; other site 266264011663 D-loop; other site 266264011664 H-loop/switch region; other site 266264011665 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 266264011666 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 266264011667 Walker A/P-loop; other site 266264011668 ATP binding site; other site 266264011669 Q-loop/lid; other site 266264011670 ABC transporter signature motif; other site 266264011671 Walker B; other site 266264011672 D-loop; other site 266264011673 H-loop/switch region; other site 266264011674 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 266264011675 TM-ABC transporter signature motif; other site 266264011676 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 266264011677 TM-ABC transporter signature motif; other site 266264011678 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011679 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264011680 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264011681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011682 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...; Region: PBPb; cl11400 266264011683 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011684 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264011685 putative substrate translocation pore; other site 266264011686 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 266264011687 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 trans-...; Region: HisKA; cd00082 266264011688 dimer interface; other site 266264011689 phosphorylation site; other site 266264011690 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 266264011691 ATP binding site; other site 266264011692 Mg2+ binding site; other site 266264011693 G-X-G motif; other site 266264011694 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 266264011695 active site; other site 266264011696 phosphorylation site; other site 266264011697 intermolecular recognition site; other site 266264011698 dimerization interface; other site 266264011699 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 266264011700 putative binding surface; other site 266264011701 active site; other site 266264011702 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264011703 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 266264011704 active site; other site 266264011705 phosphorylation site; other site 266264011706 intermolecular recognition site; other site 266264011707 dimerization interface; other site 266264011708 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...; Region: LuxR_C_like; cd06170 266264011709 DNA binding residues; other site 266264011710 dimerization interface; other site 266264011711 Sensors of blue-light using FAD; Region: BLUF; pfam04940 266264011712 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 266264011713 GTP cyclohydrolase I; Provisional; Region: PLN03044 266264011714 active site; other site 266264011715 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 266264011716 transmembrane helices; other site 266264011717 Transglycosylase; Region: Transgly; cl07896 266264011718 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 266264011719 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 266264011720 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 266264011721 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 266264011722 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 266264011723 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 266264011724 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 266264011725 CARDB; Region: CARDB; pfam07705 266264011726 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 266264011727 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 266264011728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 266264011729 Secretin and TonB N terminus short domain; Region: STN; pfam07660 266264011730 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 266264011731 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 266264011732 N-terminal plug; other site 266264011733 ligand-binding site; other site 266264011734 fec operon regulator FecR; Reviewed; Region: PRK09774 266264011735 FecR protein; Region: FecR; pfam04773 266264011736 RNA polymerase sigma factor; Provisional; Region: PRK12528 266264011737 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...; Region: Sigma70_r4; cl01055 266264011738 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 266264011739 active site; other site 266264011740 phosphorylation site; other site 266264011741 intermolecular recognition site; other site 266264011742 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 266264011743 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 266264011744 aspartate racemase; Region: asp_race; TIGR00035 266264011745 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264011746 Integrase core domain; Region: rve; cl01316 266264011747 Fimbrial protein; Region: Fimbrial; cl01416 266264011748 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 266264011749 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 266264011750 Cupin domain; Region: Cupin_2; cl09118 266264011751 PIN domain; Region: PIN; cl09128 266264011752 shikimate kinase; Reviewed; Region: aroK; PRK00131 266264011753 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...; Region: SK; cd00464 266264011754 ADP binding site; other site 266264011755 magnesium binding site; other site 266264011756 putative shikimate binding site; other site 266264011757 benzoate transport; Region: 2A0115; TIGR00895 266264011758 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011759 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011760 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 266264011761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011762 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 266264011763 dimerization interface; other site 266264011764 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 266264011765 multimer interface; other site 266264011766 heterodimer interface; other site 266264011767 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 266264011768 active site; other site 266264011769 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 266264011770 heterodimer interface; other site 266264011771 active site; other site 266264011772 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 266264011773 pCLME: prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like This group contains proteins similar to pCLME, a member of the Lyase class I family. Members of this family for the most part catalyze similar beta-elimination reactions in which...; Region: pCLME; cd01597 266264011774 tetramer interface; other site 266264011775 active site; other site 266264011776 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 266264011777 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 266264011778 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 266264011779 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264011780 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 266264011781 Cupin domain; Region: Cupin_2; cl09118 266264011782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264011783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011784 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 266264011785 Survival protein SurE; Region: SurE; cl00448 266264011786 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264011787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264011788 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011789 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 266264011790 putative substrate binding pocket; other site 266264011791 putative dimerization interface; other site 266264011792 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011793 MFS transport protein AraJ; Provisional; Region: PRK10091 266264011794 putative substrate translocation pore; other site 266264011795 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 266264011796 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 266264011797 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 266264011798 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 266264011799 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 266264011800 Mechanosensitive ion channel; Region: MS_channel; pfam00924 266264011801 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264011802 Cytochrome c; Region: Cytochrom_C; cl11414 266264011803 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 266264011804 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 266264011805 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 266264011806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011807 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 266264011808 dimerization interface; other site 266264011809 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 266264011810 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 266264011811 active site; other site 266264011812 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 266264011813 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264011814 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264011815 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264011816 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264011817 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 266264011818 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264011819 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264011820 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264011821 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 266264011822 active site; other site 266264011823 phosphorylation site; other site 266264011824 intermolecular recognition site; other site 266264011825 dimerization interface; other site 266264011826 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...; Region: trans_reg_C; cd00383 266264011827 DNA binding site; other site 266264011828 sensor protein QseC; Provisional; Region: PRK10337 266264011829 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 trans-...; Region: HisKA; cd00082 266264011830 dimer interface; other site 266264011831 phosphorylation site; other site 266264011832 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 266264011833 ATP binding site; other site 266264011834 Mg2+ binding site; other site 266264011835 G-X-G motif; other site 266264011836 EamA-like transporter family; Region: EamA; cl01037 266264011837 multiple promoter invertase; Provisional; Region: mpi; PRK13413 266264011838 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 266264011839 catalytic residues; other site 266264011840 catalytic nucleophile; other site 266264011841 Presynaptic Site I dimer interface; other site 266264011842 Synaptic Antiparallel dimer interface; other site 266264011843 Synaptic Flat tetramer interface; other site 266264011844 Synaptic Site I dimer interface; other site 266264011845 DNA binding site; other site 266264011846 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 266264011847 DNA-binding interface; other site 266264011848 TniQ; Region: TniQ; pfam06527 266264011849 Bacterial TniB protein; Region: TniB; pfam05621 266264011850 Integrase core domain; Region: rve; cl01316 266264011851 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 266264011852 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 266264011853 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 266264011854 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...; Region: PBPb; cl11400 266264011855 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 266264011856 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 266264011857 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 266264011858 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 266264011859 putative C-terminal domain interface; other site 266264011860 putative GSH binding site (G-site); other site 266264011861 putative dimer interface; other site 266264011862 GST_C family, unknown subfamily 7; composed of uncharacterized 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 endogenous...; Region: GST_C_7; cd03206 266264011863 putative N-terminal domain interface; other site 266264011864 putative dimer interface; other site 266264011865 putative substrate binding pocket (H-site); other site 266264011866 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 266264011867 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 266264011868 putative effector binding pocket; other site 266264011869 putative dimerization interface; other site 266264011870 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 266264011871 Domain of unknown function DUF20; Region: UPF0118; cl00465 266264011872 Cytochrome C biogenesis protein; Region: CcmH; cl01179 266264011873 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 266264011874 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 266264011875 catalytic residues; other site 266264011876 central insert; other site 266264011877 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 266264011878 CcmE; Region: CcmE; cl00994 266264011879 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 266264011880 CcmB protein; Region: CcmB; cl01016 266264011881 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 266264011882 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264011883 Walker A/P-loop; other site 266264011884 ATP binding site; other site 266264011885 Q-loop/lid; other site 266264011886 ABC transporter signature motif; other site 266264011887 Walker B; other site 266264011888 D-loop; other site 266264011889 H-loop/switch region; other site 266264011890 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 266264011891 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 266264011892 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 266264011893 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 266264011894 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 oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 266264011895 [4Fe-4S] binding site; other site 266264011896 molybdopterin cofactor binding site; other site 266264011897 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 oxidation via a membrane-anchored...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 266264011898 molybdopterin cofactor binding site; other site 266264011899 NapD protein; Region: NapD; cl01163 266264011900 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 266264011901 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...; Region: PBPb; cl11400 266264011902 acyl-CoA synthetase; Validated; Region: PRK06178 266264011903 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264011904 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 266264011905 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 266264011906 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264011907 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 266264011908 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 266264011909 carboxyltransferase (CT) interaction site; other site 266264011910 biotinylation site; other site 266264011911 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 266264011912 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264011913 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264011914 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 266264011915 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011916 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 266264011917 dimerization interface; other site 266264011918 substrate binding pocket; other site 266264011919 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264011920 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 266264011921 active site 2; other site 266264011922 active site 1; other site 266264011923 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...; Region: PBPb; cl11400 266264011924 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264011925 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264011926 active site; other site 266264011927 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264011928 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264011929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264011930 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 266264011931 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...; Region: PBPb; cl11400 266264011932 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 266264011933 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264011934 putative substrate translocation pore; other site 266264011935 GYD domain; Region: GYD; cl01743 266264011936 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 266264011937 dimer interface; other site 266264011938 Alkaline phosphatase homologues; Region: alkPPc; smart00098 266264011939 active site; other site 266264011940 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 266264011941 dimer interface; other site 266264011942 Alkaline phosphatase homologues; Region: alkPPc; smart00098 266264011943 active site; other site 266264011944 Protein of unknown function (DUF330); Region: DUF330; cl01135 266264011945 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 266264011946 mce related protein; Region: MCE; pfam02470 266264011947 mce related protein; Region: MCE; pfam02470 266264011948 mce related protein; Region: MCE; pfam02470 266264011949 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 266264011950 Paraquat-inducible protein A; Region: PqiA; pfam04403 266264011951 Paraquat-inducible protein A; Region: PqiA; pfam04403 266264011952 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 266264011953 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 266264011954 DNA binding residues; other site 266264011955 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 266264011956 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 266264011957 putative active site; other site 266264011958 putative FMN binding site; other site 266264011959 putative substrate binding site; other site 266264011960 putative catalytic residue; other site 266264011961 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264011962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264011963 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 266264011964 putative effector binding pocket; other site 266264011965 putative dimerization interface; other site 266264011966 Pirin-related protein [General function prediction only]; Region: COG1741 266264011967 Cupin domain; Region: Cupin_2; cl09118 266264011968 DoxX; Region: DoxX; cl00976 266264011969 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 266264011970 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264011971 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...; Region: gram_neg_porins; cd00342 266264011972 trimer interface; other site 266264011973 eyelet of channel; other site 266264011974 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 266264011975 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264011976 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264011977 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264011978 DNA-binding site; other site 266264011979 FCD domain; Region: FCD; cl11656 266264011980 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264011981 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 266264011982 substrate binding site; other site 266264011983 oxyanion hole (OAH) forming residues; other site 266264011984 trimer interface; other site 266264011985 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 266264011986 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...; Region: PBPb; cl11400 266264011987 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264011988 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264011989 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 266264011990 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 266264011991 FMN binding site; other site 266264011992 active site; other site 266264011993 substrate binding site; other site 266264011994 catalytic residue; other site 266264011995 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 266264011996 GAF domain; Region: GAF; cl00853 266264011997 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...; Region: AAA; cd00009 266264011998 Walker A motif; other site 266264011999 ATP binding site; other site 266264012000 Walker B motif; other site 266264012001 arginine finger; other site 266264012002 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264012003 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 266264012004 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 266264012005 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 266264012006 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 266264012007 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 266264012008 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; cl01902 266264012009 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 266264012010 intersubunit interface; other site 266264012011 active site; other site 266264012012 Zn2+ binding site; other site 266264012013 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...; Region: PBPb; cl11400 266264012014 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 266264012015 non-specific DNA binding site; other site 266264012016 salt bridge; other site 266264012017 sequence-specific DNA binding site; other site 266264012018 Cupin domain; Region: Cupin_2; cl09118 266264012019 MOSC domain; Region: MOSC; pfam03473 266264012020 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 266264012021 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...; Region: PDR_like; cd06185 266264012022 FMN-binding pocket; other site 266264012023 flavin binding motif; other site 266264012024 phosphate binding motif; other site 266264012025 beta-alpha-beta structure motif; other site 266264012026 NAD binding pocket; other site 266264012027 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 266264012028 pyridoxal 5'-phosphate (PLP) binding site; other site 266264012029 catalytic residue; other site 266264012030 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 266264012031 dimer interface; other site 266264012032 pyridoxal binding site; other site 266264012033 ATP binding site; other site 266264012034 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 266264012035 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 266264012036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264012037 DNA-binding site; other site 266264012038 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 266264012039 pyridoxal 5'-phosphate binding site; other site 266264012040 homodimer interface; other site 266264012041 catalytic residue; other site 266264012042 Outer membrane efflux protein; Region: OEP; pfam02321 266264012043 Outer membrane efflux protein; Region: OEP; pfam02321 266264012044 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264012045 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264012046 Integrase core domain; Region: rve; cl01316 266264012047 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 266264012048 Protein of unknown function (DUF2880); Region: DUF2880; pfam11082 266264012049 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 266264012050 NifQ; Region: NifQ; pfam04891 266264012051 Pol_Y_like: a group of putative Y-family DNA polymerases. Y-family polymerases can transverse normal replication-blocking DNA lesions, such as cyclobutane pyrimidine dimers resulting from UV damage, at higher error rate. The Y-family has no 3'->5...; Region: Pol_Y_like; cd03468 266264012052 DNA binding interface; other site 266264012053 active site residues; other site 266264012054 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 266264012055 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 266264012056 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 266264012057 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...; Region: DnaE_OBF; cd04485 266264012058 generic binding surface II; other site 266264012059 generic binding surface I; other site 266264012060 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 266264012061 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 266264012062 dimer interface; other site 266264012063 decamer (pentamer of dimers) interface; other site 266264012064 catalytic triad; other site 266264012065 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 266264012066 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 266264012067 E3 interaction surface; other site 266264012068 lipoyl attachment site; other site 266264012069 e3 binding domain; Region: E3_binding; pfam02817 266264012070 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 266264012071 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 266264012072 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 266264012073 alpha subunit interface; other site 266264012074 TPP binding site; other site 266264012075 heterodimer interface; other site 266264012076 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 266264012077 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 266264012078 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 alpha-keto acid dehydrogenase/2-oxoisovalerate dehydrogenase complex...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 266264012079 tetramer interface; other site 266264012080 TPP-binding site; other site 266264012081 heterodimer interface; other site 266264012082 phosphorylation loop region; other site 266264012083 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 266264012084 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 266264012085 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...; Region: CAS_like; cl00184 266264012086 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 266264012087 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...; Region: PBPb; cl11400 266264012088 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 266264012089 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 266264012090 Walker A/P-loop; other site 266264012091 ATP binding site; other site 266264012092 Q-loop/lid; other site 266264012093 ABC transporter signature motif; other site 266264012094 Walker B; other site 266264012095 D-loop; other site 266264012096 H-loop/switch region; other site 266264012097 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,...; Region: TM_PBP2; cl00427 266264012098 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 266264012099 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 266264012100 S-adenosylmethionine binding site; other site 266264012101 major facilitator superfamily transporter; Provisional; Region: PRK05122 266264012102 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264012103 putative substrate translocation pore; other site 266264012104 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264012105 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012106 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264012107 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264012108 metal binding site; other site 266264012109 active site; other site 266264012110 I-site; other site 266264012111 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA)...; Region: CCL_ACL-C; cd06100 266264012112 active site; other site 266264012113 oxalacetate binding site; other site 266264012114 citrylCoA binding site; other site 266264012115 coenzyme A binding site; other site 266264012116 catalytic triad; other site 266264012117 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264012118 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...; Region: PBPb; cl11400 266264012119 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 266264012120 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 266264012121 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 266264012122 Active site cavity; other site 266264012123 catalytic acid; other site 266264012124 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 266264012125 active site lid residues; other site 266264012126 substrate binding pocket; other site 266264012127 catalytic residues; other site 266264012128 substrate-Mg2+ binding site; other site 266264012129 aspartate-rich region 1; other site 266264012130 aspartate-rich region 2; other site 266264012131 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 266264012132 DNA-binding site; other site 266264012133 RNA-binding motif; other site 266264012134 Integrase core domain; Region: rve; cl01316 266264012135 Transposase domain (DUF772); Region: DUF772; cl12084 266264012136 Transposase DDE domain; Region: Transposase_11; pfam01609 266264012137 Transposase DDE domain; Region: Transposase_11; pfam01609 266264012138 TM1410 hypothetical-related protein; Region: DUF297; cl00997 266264012139 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 266264012140 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 266264012141 Predicted integral membrane protein [Function unknown]; Region: COG5616 266264012142 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...; Region: GT1_like_3; cd03813 266264012143 Predicted membrane protein [Function unknown]; Region: COG4267 266264012144 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264012145 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 266264012146 active site; other site 266264012147 phosphorylation site; other site 266264012148 intermolecular recognition site; other site 266264012149 dimerization interface; other site 266264012150 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...; Region: trans_reg_C; cd00383 266264012151 DNA binding site; other site 266264012152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 266264012153 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 266264012154 putative peptidoglycan binding site; other site 266264012155 FecR protein; Region: FecR; pfam04773 266264012156 CHASE2 domain; Region: CHASE2; cl01732 266264012157 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 266264012158 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 trans-...; Region: HisKA; cd00082 266264012159 dimer interface; other site 266264012160 phosphorylation site; other site 266264012161 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 266264012162 ATP binding site; other site 266264012163 Mg2+ binding site; other site 266264012164 G-X-G motif; other site 266264012165 VacJ like lipoprotein; Region: VacJ; cl01073 266264012166 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 266264012167 MMPL family; Region: MMPL; cl12044 266264012168 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 266264012169 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 266264012170 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 266264012171 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 266264012172 FeS/SAM binding site; other site 266264012173 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 266264012174 LytB protein; Region: LYTB; cl00507 266264012175 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 266264012176 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 266264012177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012178 hopene-associated glycosyltransferase HpnB; Region: HonB; TIGR03469 266264012179 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 266264012180 active site; other site 266264012181 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 266264012182 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 266264012183 dimerization interface; other site 266264012184 putative active cleft; other site 266264012185 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264012186 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012187 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 266264012188 dimerization interface; other site 266264012189 multidrug efflux system protein MdtE; Provisional; Region: PRK10504 266264012190 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264012191 putative substrate translocation pore; other site 266264012192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012193 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 266264012194 dimerization interface; other site 266264012195 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 266264012196 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 266264012197 active site 1; other site 266264012198 dimer interface; other site 266264012199 hexamer interface; other site 266264012200 active site 2; other site 266264012201 Predicted esterase [General function prediction only]; Region: COG0400 266264012202 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 266264012203 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264012204 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 266264012205 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264012206 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264012207 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264012208 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 266264012209 A functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site...; Region: Peptidase_M14-like_7; cd03862 266264012210 putative active site; other site 266264012211 Zn-binding site; other site 266264012212 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012213 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 266264012214 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 266264012215 dimerization interface; other site 266264012216 Pseudomonas-type; Region: PC_PLC; TIGR03396 266264012217 Phosphoesterase family; Region: Phosphoesterase; cl10627 266264012218 Domain of unknown function (DUF756); Region: DUF756; pfam05506 266264012219 Domain of unknown function (DUF756); Region: DUF756; pfam05506 266264012220 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 266264012221 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 266264012222 dimer interface; other site 266264012223 active site; other site 266264012224 pyridoxal 5'-phosphate (PLP) binding site; other site 266264012225 substrate binding site; other site 266264012226 catalytic residue; other site 266264012227 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 266264012228 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264012229 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264012230 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 266264012231 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 1,2...; Region: DsbA_HCCA_Iso; cd03022 266264012232 putative catalytic residue; other site 266264012233 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012234 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 266264012235 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012236 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 266264012237 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 266264012238 FAD binding pocket; other site 266264012239 FAD binding motif; other site 266264012240 phosphate binding motif; other site 266264012241 NAD binding pocket; other site 266264012242 aspartate aminotransferase; Provisional; Region: PRK07681 266264012243 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 266264012244 pyridoxal 5'-phosphate binding site; other site 266264012245 homodimer interface; other site 266264012246 catalytic residue; other site 266264012247 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 266264012248 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012249 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 266264012250 dimerization interface; other site 266264012251 substrate binding pocket; other site 266264012252 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...; Region: PBPb; cl11400 266264012253 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 266264012254 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 266264012255 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 266264012256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012257 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 266264012258 putative dimerization interface; other site 266264012259 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264012260 Integrase core domain; Region: rve; cl01316 266264012261 PIN domain; Region: PIN; cl09128 266264012262 tricarballylate dehydrogenase; Validated; Region: PRK08274 266264012263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012264 CitB domain protein; Region: CitB; TIGR02484 266264012265 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 266264012266 intersubunit interface; other site 266264012267 active site; other site 266264012268 Zn2+ binding site; other site 266264012269 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...; Region: PBPb; cl11400 266264012270 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 266264012271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012272 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 266264012273 active site; other site 266264012274 phosphorylation site; other site 266264012275 intermolecular recognition site; other site 266264012276 dimerization interface; other site 266264012277 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 266264012278 E3 interaction surface; other site 266264012279 lipoyl attachment site; other site 266264012280 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 266264012281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012283 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 266264012284 LysE type translocator; Region: LysE; cl00565 266264012285 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012286 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 266264012287 dimerization interface; other site 266264012288 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264012289 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 266264012290 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...; Region: gram_neg_porins; cd00342 266264012291 trimer interface; other site 266264012292 eyelet of channel; other site 266264012293 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264012294 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012295 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...; Region: PBPb; cl11400 266264012296 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264012297 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 266264012298 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264012299 substrate binding site; other site 266264012300 oxyanion hole (OAH) forming residues; other site 266264012301 trimer interface; other site 266264012302 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264012303 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012304 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 266264012305 putative dimerization interface; other site 266264012306 Transposase domain (DUF772); Region: DUF772; cl12084 266264012307 Transposase DDE domain; Region: Transposase_11; pfam01609 266264012308 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264012309 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 266264012310 active site; other site 266264012311 phosphorylation site; other site 266264012312 intermolecular recognition site; other site 266264012313 dimerization interface; other site 266264012314 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...; Region: LuxR_C_like; cd06170 266264012315 DNA binding residues; other site 266264012316 dimerization interface; other site 266264012317 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...; Region: gram_neg_porins; cd00342 266264012318 trimer interface; other site 266264012319 eyelet of channel; other site 266264012320 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...; Region: PBPb; cl11400 266264012321 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 266264012322 hypothetical protein; Validated; Region: PRK06201 266264012323 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 266264012324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012325 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264012326 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 266264012327 active site; other site 266264012328 phosphorylation site; other site 266264012329 intermolecular recognition site; other site 266264012330 dimerization interface; other site 266264012331 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...; Region: LuxR_C_like; cd06170 266264012332 DNA binding residues; other site 266264012333 dimerization interface; other site 266264012334 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 266264012335 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...; Region: gram_neg_porins; cd00342 266264012336 eyelet of channel; other site 266264012337 trimer interface; other site 266264012338 aconitate hydratase; Validated; Region: PRK09277 266264012339 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 266264012340 substrate binding site; other site 266264012341 ligand binding site; other site 266264012342 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 266264012343 substrate binding site; other site 266264012344 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 266264012345 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...; Region: PBPb; cl11400 266264012346 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 266264012347 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 266264012348 ligand binding site; other site 266264012349 flexible hinge region; other site 266264012350 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012351 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264012352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012353 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 266264012354 putative dimerization interface; other site 266264012355 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 266264012356 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 266264012357 Fimbrial protein; Region: Fimbrial; cl01416 266264012358 putative chaperone protein EcpD; Provisional; Region: PRK09926 266264012359 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 266264012360 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 266264012361 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 266264012362 Fimbrial Usher protein; Region: Usher; pfam00577 266264012363 Fimbrial protein; Region: Fimbrial; cl01416 266264012364 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264012365 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 trans-...; Region: HisKA; cd00082 266264012366 dimer interface; other site 266264012367 phosphorylation site; other site 266264012368 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 266264012369 ATP binding site; other site 266264012370 Mg2+ binding site; other site 266264012371 G-X-G motif; other site 266264012372 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...; Region: PBPb; cd00134 266264012373 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264012374 substrate binding pocket; other site 266264012375 membrane-bound complex binding site; other site 266264012376 hinge residues; other site 266264012377 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264012378 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...; Region: PBPb; cd00134 266264012379 substrate binding pocket; other site 266264012380 membrane-bound complex binding site; other site 266264012381 hinge residues; other site 266264012382 PAS fold; Region: PAS_4; pfam08448 266264012383 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 266264012384 putative active site; other site 266264012385 heme pocket; other site 266264012386 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 trans-...; Region: HisKA; cd00082 266264012387 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 266264012388 dimer interface; other site 266264012389 phosphorylation site; other site 266264012390 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 266264012391 ATP binding site; other site 266264012392 Mg2+ binding site; other site 266264012393 G-X-G motif; other site 266264012394 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 266264012395 active site; other site 266264012396 phosphorylation site; other site 266264012397 intermolecular recognition site; other site 266264012398 dimerization interface; other site 266264012399 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264012400 voltage-gated potassium channel; Provisional; Region: PRK10537 266264012401 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 266264012402 Pirin-related protein [General function prediction only]; Region: COG1741 266264012403 Cupin domain; Region: Cupin_2; cl09118 266264012404 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 266264012405 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 266264012406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012407 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 266264012408 putative effector binding pocket; other site 266264012409 putative dimerization interface; other site 266264012410 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264012411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012412 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 266264012413 putative effector binding pocket; other site 266264012414 dimerization interface; other site 266264012415 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 266264012416 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 266264012417 dimer interface; other site 266264012418 TPP-binding site; other site 266264012419 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264012420 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264012421 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 266264012422 Isochorismatase family; Region: Isochorismatase; pfam00857 266264012423 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 266264012424 catalytic triad; other site 266264012425 dimer interface; other site 266264012426 conserved cis-peptide bond; other site 266264012427 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA)...; Region: CCL_ACL-C; cd06100 266264012428 active site; other site 266264012429 oxalacetate binding site; other site 266264012430 citrylCoA binding site; other site 266264012431 coenzyme A binding site; other site 266264012432 catalytic triad; other site 266264012433 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 266264012434 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264012435 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl01383 266264012436 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 266264012437 Active site; other site 266264012438 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 266264012439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012440 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264012441 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264012442 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 266264012443 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 266264012444 substrate binding site; other site 266264012445 ligand binding site; other site 266264012446 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 3...; Region: IPMI_Swivel; cd01577 266264012447 substrate binding site; other site 266264012448 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...; Region: PBPb; cl11400 266264012449 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 266264012450 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 266264012451 NodT family; Region: outer_NodT; TIGR01845 266264012452 Outer membrane efflux protein; Region: OEP; pfam02321 266264012453 Outer membrane efflux protein; Region: OEP; pfam02321 266264012454 Fusaric acid resistance protein family; Region: FUSC; pfam04632 266264012455 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 266264012456 DoxX; Region: DoxX; cl00976 266264012457 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 266264012458 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 266264012459 NAD(P) binding site; other site 266264012460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264012461 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012462 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 266264012463 dimerization interface; other site 266264012464 Putative phospholipid-binding domain; Region: BON; cl02771 266264012465 Entericidin EcnA/B family; Region: Entericidin; cl02322 266264012466 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264012467 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...; Region: PBPb; cl11400 266264012468 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 266264012469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012470 short chain dehydrogenase; Provisional; Region: PRK06914 266264012471 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264012472 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264012473 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 266264012474 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 266264012475 tetramer interface; other site 266264012476 active site; other site 266264012477 Mg2+/Mn2+ binding site; other site 266264012478 Propionate catabolism activator; Region: PrpR_N; pfam06506 266264012479 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 266264012480 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...; Region: AAA; cd00009 266264012481 Walker A motif; other site 266264012482 ATP binding site; other site 266264012483 Walker B motif; other site 266264012484 arginine finger; other site 266264012485 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264012486 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 266264012487 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 266264012488 putative NAD(P) binding site; other site 266264012489 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 266264012490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264012491 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012492 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 266264012493 dimerization interface; other site 266264012494 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 266264012495 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 266264012496 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 266264012497 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 266264012498 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 266264012499 FAD binding domain; Region: FAD_binding_2; pfam00890 266264012500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012501 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 266264012502 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 alpha-.; Region: HCP_like; cl00255 266264012503 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 266264012504 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; cl09110 266264012505 transmembrane helices; other site 266264012506 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264012507 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 266264012508 putative substrate translocation pore; other site 266264012509 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264012510 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264012511 The Adenylation domain of proteins from the ATP-dependent polynucleotide ligase family is the minimal catalytic unit that is common to all family members; Region: Adenylation_DNA_ligase_family; cl12015 266264012512 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264012513 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264012514 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 266264012515 Predicted transcriptional regulator [Transcription]; Region: COG1959 266264012516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012517 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 266264012518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264012519 putative substrate translocation pore; other site 266264012520 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264012521 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 266264012522 NodT family; Region: outer_NodT; TIGR01845 266264012523 Outer membrane efflux protein; Region: OEP; pfam02321 266264012524 Outer membrane efflux protein; Region: OEP; pfam02321 266264012525 Cupin domain; Region: Cupin_2; cl09118 266264012526 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264012527 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 266264012528 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264012529 DNA-binding site; other site 266264012530 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 266264012531 pyridoxal 5'-phosphate binding site; other site 266264012532 homodimer interface; other site 266264012533 catalytic residue; other site 266264012534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012535 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264012536 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 266264012537 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264012538 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264012539 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the...; Region: cbb3_Oxidase_I; cd01661 266264012540 Low-spin heme binding site; other site 266264012541 Putative water exit pathway; other site 266264012542 Binuclear center (active site); other site 266264012543 Putative proton exit pathway; other site 266264012544 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 266264012545 Cytochrome c; Region: Cytochrom_C; cl11414 266264012546 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 266264012547 Cu(I) binding site; other site 266264012548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012549 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264012550 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 266264012551 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 266264012552 Predicted transcriptional regulator [Transcription]; Region: COG1959 266264012553 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012554 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...; Region: PBPb; cl11400 266264012555 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 266264012556 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 266264012557 Walker A/P-loop; other site 266264012558 ATP binding site; other site 266264012559 Q-loop/lid; other site 266264012560 ABC transporter signature motif; other site 266264012561 Walker B; other site 266264012562 D-loop; other site 266264012563 H-loop/switch region; other site 266264012564 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,...; Region: TM_PBP2; cl00427 266264012565 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 266264012566 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 266264012567 active site; other site 266264012568 Ferredoxin [Energy production and conversion]; Region: COG1146 266264012569 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 alpha-.; Region: HCP_like; cl00255 266264012570 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 266264012571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012572 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 266264012573 Fatty acid desaturase; Region: FA_desaturase; pfam00487 266264012574 putative di-iron ligands; other site 266264012575 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...; Region: PBPb; cl11400 266264012576 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 266264012577 active site residue; other site 266264012578 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 266264012579 active site residue; other site 266264012580 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 266264012581 active site residue; other site 266264012582 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 266264012583 active site residue; other site 266264012584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012585 Predicted dehydrogenase [General function prediction only]; Region: COG0579 266264012586 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...; Region: PBPb; cl11400 266264012587 Argininosuccinate lyase (argininosuccinase, ASAL). This group contains proteins similar to ASAL, a member of the Lyase class I family. Members of this family for the most part catalyze similar beta-elimination reactions in which a C-N or C-O bond is...; Region: Argininosuccinate_lyase; cd01359 266264012588 active sites; other site 266264012589 argininosuccinate lyase; Provisional; Region: PRK00855 266264012590 tetramer interface; other site 266264012591 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 266264012592 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012593 The C-terminal substrate-domain of LysR-type transcriptional regulator, NocR, involved in the catabolism of nopaline, contains the type 2 periplasmic binding fold; Region: PBP2_NocR; cd08458 266264012594 putative dimerization interface; other site 266264012595 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...; Region: gram_neg_porins; cd00342 266264012596 trimer interface; other site 266264012597 eyelet of channel; other site 266264012598 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264012599 Protein with unknown function (DUF469); Region: DUF469; cl01237 266264012600 Domain of unknown function (DUF427); Region: DUF427; cl00998 266264012601 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264012602 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264012603 DNA-binding site; other site 266264012604 FCD domain; Region: FCD; cl11656 266264012605 PAS domain S-box; Region: sensory_box; TIGR00229 266264012606 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 266264012607 putative active site; other site 266264012608 heme pocket; other site 266264012609 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....; Region: LuxR_C_like; cl10457 266264012610 Integral membrane protein TerC family; Region: TerC; cl10468 266264012611 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 266264012612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012613 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 266264012614 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264012615 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264012616 DNA-binding site; other site 266264012617 FCD domain; Region: FCD; cl11656 266264012618 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 266264012619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012620 CoA-ligase; Region: Ligase_CoA; pfam00549 266264012621 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 266264012622 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264012623 CoA-ligase; Region: Ligase_CoA; pfam00549 266264012624 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 266264012625 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 266264012626 PYR/PP interface; other site 266264012627 dimer interface; other site 266264012628 TPP binding site; other site 266264012629 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 266264012630 TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL cleaves the acyloin linkage of benzoin producing 2 molecules...; Region: TPP_BZL_OCoD_HPCL; cd02004 266264012631 TPP-binding site; other site 266264012632 dimer interface; other site 266264012633 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264012634 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 266264012635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012636 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 266264012637 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 266264012638 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264012639 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012640 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 266264012641 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 266264012642 putative dimerization interface; other site 266264012643 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 266264012644 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264012645 putative substrate translocation pore; other site 266264012646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264012647 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012648 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 266264012649 putative dimerization interface; other site 266264012650 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 266264012651 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264012652 putative substrate translocation pore; other site 266264012653 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 266264012654 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 266264012655 putative NAD(P) binding site; other site 266264012656 dimer interface; other site 266264012657 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264012658 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 266264012659 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264012660 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264012661 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264012662 homogentisate 1,2-dioxygenase; Region: HgmA; cl10473 266264012663 fumarylacetoacetase; Region: PLN02856 266264012664 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 266264012665 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264012666 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 266264012667 putative acyl-acceptor binding pocket; other site 266264012668 Phosphopantetheine attachment site; Region: PP-binding; cl09936 266264012669 Phosphopantetheine attachment site; Region: PP-binding; cl09936 266264012670 Predicted membrane protein [Function unknown]; Region: COG4648 266264012671 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 266264012672 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264012673 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 266264012674 Ligand binding site; other site 266264012675 Putative Catalytic site; other site 266264012676 DXD motif; other site 266264012677 Predicted acyltransferase [General function prediction only]; Region: COG4261 266264012678 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 266264012679 putative acyl-acceptor binding pocket; other site 266264012680 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...; Region: 4HBT; cd00586 266264012681 active site; other site 266264012682 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 266264012683 Predicted exporter [General function prediction only]; Region: COG4258 266264012684 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 266264012685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012686 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 266264012687 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 266264012688 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 266264012689 dimer interface; other site 266264012690 active site; other site 266264012691 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 266264012692 putative active site 1; other site 266264012693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012694 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264012695 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 266264012696 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 266264012697 dimer interface; other site 266264012698 active site; other site 266264012699 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 266264012700 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264012701 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264012702 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 266264012703 Ligand Binding Site; other site 266264012704 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 266264012705 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 266264012706 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...; Region: TM_PBP2; cd06261 266264012707 dimer interface; other site 266264012708 conserved gate region; other site 266264012709 putative PBP binding loops; other site 266264012710 ABC-ATPase subunit interface; other site 266264012711 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...; Region: TM_PBP2; cd06261 266264012712 dimer interface; other site 266264012713 conserved gate region; other site 266264012714 putative PBP binding loops; other site 266264012715 ABC-ATPase subunit interface; other site 266264012716 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 266264012717 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264012718 Walker A/P-loop; other site 266264012719 ATP binding site; other site 266264012720 Q-loop/lid; other site 266264012721 ABC transporter signature motif; other site 266264012722 Walker B; other site 266264012723 D-loop; other site 266264012724 H-loop/switch region; other site 266264012725 TOBE domain; Region: TOBE_2; cl01440 266264012726 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 266264012727 EamA-like transporter family; Region: EamA; cl01037 266264012728 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 266264012729 EamA-like transporter family; Region: EamA; cl01037 266264012730 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 266264012731 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 266264012732 Active site cavity; other site 266264012733 catalytic acid; other site 266264012734 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264012735 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264012736 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 266264012737 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...; Region: PBPb; cl11400 266264012738 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 266264012739 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...; Region: CAS_like; cl00184 266264012740 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264012741 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264012742 active site; other site 266264012743 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 266264012744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012745 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 266264012746 DUF35 OB-fold domain; Region: DUF35; pfam01796 266264012747 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 266264012748 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264012749 active site; other site 266264012750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012751 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264012752 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...; Region: PBPb; cl11400 266264012753 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 266264012754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264012755 DNA-binding site; other site 266264012756 UTRA domain; Region: UTRA; cl06649 266264012757 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264012758 Integrase core domain; Region: rve; cl01316 266264012759 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264012760 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264012761 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264012762 Integrase core domain; Region: rve; cl01316 266264012763 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264012764 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264012765 active site; other site 266264012766 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 266264012767 putative active site; other site 266264012768 putative catalytic site; other site 266264012769 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 266264012770 active site 2; other site 266264012771 active site 1; other site 266264012772 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 266264012773 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 266264012774 NAD(P) binding site; other site 266264012775 catalytic residues; other site 266264012776 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 266264012777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012778 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264012779 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264012780 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...; Region: PBPb; cl11400 266264012781 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 266264012782 Predicted amidohydrolase [General function prediction only]; Region: COG0388 266264012783 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 266264012784 putative active site; other site 266264012785 catalytic triad; other site 266264012786 dimer interface; other site 266264012787 Beta-lactamase; Region: Beta-lactamase; cl01009 266264012788 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...; Region: PBPb; cl11400 266264012789 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 266264012790 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 266264012791 active site; other site 266264012792 putative substrate binding pocket; other site 266264012793 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 266264012794 homotrimer interaction site; other site 266264012795 putative active site; other site 266264012796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012797 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 266264012798 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 266264012799 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012800 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 266264012801 dimerization interface; other site 266264012802 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...; Region: PBPb; cl11400 266264012803 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 266264012804 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012805 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 266264012806 putative dimerization interface; other site 266264012807 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264012808 Transcriptional regulators [Transcription]; Region: FadR; COG2186 266264012809 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264012810 DNA-binding site; other site 266264012811 FCD domain; Region: FCD; cl11656 266264012812 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264012813 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 266264012814 substrate binding site; other site 266264012815 oxyanion hole (OAH) forming residues; other site 266264012816 trimer interface; other site 266264012817 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...; Region: PBPb; cl11400 266264012818 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 266264012819 Ligand Binding Site; other site 266264012820 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264012821 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 266264012822 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 266264012823 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264012824 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264012825 Putative cyclase; Region: Cyclase; cl00814 266264012826 Cupin domain; Region: Cupin_2; cl09118 266264012827 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...; Region: PBPb; cl11400 266264012828 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264012829 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264012830 active site; other site 266264012831 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 266264012832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264012833 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 266264012834 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 266264012835 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 266264012836 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264012837 metal binding site; other site 266264012838 active site; other site 266264012839 I-site; other site 266264012840 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 266264012841 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 266264012842 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 266264012843 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264012844 Integrase core domain; Region: rve; cl01316 266264012845 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 266264012846 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 266264012847 active site; other site 266264012848 phosphorylation site; other site 266264012849 intermolecular recognition site; other site 266264012850 dimerization interface; other site 266264012851 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...; Region: trans_reg_C; cd00383 266264012852 DNA binding site; other site 266264012853 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 266264012854 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 trans-...; Region: HisKA; cd00082 266264012855 dimer interface; other site 266264012856 phosphorylation site; other site 266264012857 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 266264012858 ATP binding site; other site 266264012859 Mg2+ binding site; other site 266264012860 G-X-G motif; other site 266264012861 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264012862 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 266264012863 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 266264012864 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 266264012865 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 266264012866 Ligand Binding Site; other site 266264012867 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 266264012868 Permease family; Region: Xan_ur_permease; cl00967 266264012869 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 266264012870 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 266264012871 multiple promoter invertase; Provisional; Region: mpi; PRK13413 266264012872 catalytic residues; other site 266264012873 catalytic nucleophile; other site 266264012874 Presynaptic Site I dimer interface; other site 266264012875 Synaptic Antiparallel dimer interface; other site 266264012876 Synaptic Flat tetramer interface; other site 266264012877 Synaptic Site I dimer interface; other site 266264012878 DNA binding site; other site 266264012879 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 266264012880 DNA-binding interface; other site 266264012881 Transposase; Region: Transposase_7; pfam01526 266264012882 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264012883 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264012884 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264012885 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 266264012886 putative ligand binding site; other site 266264012887 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 266264012888 TM-ABC transporter signature motif; other site 266264012889 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 266264012890 TM-ABC transporter signature motif; other site 266264012891 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 266264012892 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 266264012893 Walker A/P-loop; other site 266264012894 ATP binding site; other site 266264012895 Q-loop/lid; other site 266264012896 ABC transporter signature motif; other site 266264012897 Walker B; other site 266264012898 D-loop; other site 266264012899 H-loop/switch region; other site 266264012900 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264012901 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 266264012902 Walker A/P-loop; other site 266264012903 ATP binding site; other site 266264012904 Q-loop/lid; other site 266264012905 ABC transporter signature motif; other site 266264012906 Walker B; other site 266264012907 D-loop; other site 266264012908 H-loop/switch region; other site 266264012909 allantoate amidohydrolase; Reviewed; Region: PRK12893 266264012910 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264012911 Uncharacterized conserved protein [Function unknown]; Region: COG5476 266264012912 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 266264012913 MlrC C-terminus; Region: MlrC_C; pfam07171 266264012914 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264012915 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264012916 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 266264012917 CoenzymeA binding site; other site 266264012918 subunit interaction site; other site 266264012919 PHB binding site; other site 266264012920 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 5,10-...; Region: DHFR; cl00161 266264012921 Protein of unknown function (DUF342); Region: DUF342; pfam03961 266264012922 Zonular occludens toxin (Zot); Region: Zot; cl01706 266264012923 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 266264012924 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 266264012925 N-terminal plug; other site 266264012926 ligand-binding site; other site 266264012927 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 266264012928 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 266264012929 N-terminal plug; other site 266264012930 ligand-binding site; other site 266264012931 fec operon regulator FecR; Reviewed; Region: PRK09774 266264012932 FecR protein; Region: FecR; pfam04773 266264012933 RNA polymerase sigma factor; Provisional; Region: PRK12528 266264012934 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264012935 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...; Region: Sigma70_r4; cl01055 266264012936 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...; Region: PBPb; cl11400 266264012937 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 266264012938 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264012939 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...; Region: PBPb; cl11400 266264012940 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264012941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264012942 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 266264012943 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264012944 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 266264012945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264012946 metabolite-proton symporter; Region: 2A0106; TIGR00883 266264012947 putative substrate translocation pore; other site 266264012948 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 266264012949 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264012950 PilZ domain; Region: PilZ; cl01260 266264012951 multidrug resistance protein MdtN; Provisional; Region: PRK10476 266264012952 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,...; Region: Biotinyl_lipoyl_domains; cl11404 266264012953 Fusaric acid resistance protein family; Region: FUSC; pfam04632 266264012954 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 266264012955 Outer membrane efflux protein; Region: OEP; pfam02321 266264012956 Outer membrane efflux protein; Region: OEP; pfam02321 266264012957 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 266264012958 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 266264012959 active site 2; other site 266264012960 active site 1; other site 266264012961 Phage integrase protein; Region: DUF3701; pfam12482 266264012962 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 266264012963 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 266264012964 Int/Topo IB signature motif; other site 266264012965 PAS domain S-box; Region: sensory_box; TIGR00229 266264012966 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 266264012967 putative active site; other site 266264012968 heme pocket; other site 266264012969 Histidine kinase; Region: HisKA_3; pfam07730 266264012970 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 266264012971 ATP binding site; other site 266264012972 Mg2+ binding site; other site 266264012973 G-X-G motif; other site 266264012974 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264012975 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 266264012976 active site; other site 266264012977 phosphorylation site; other site 266264012978 intermolecular recognition site; other site 266264012979 dimerization interface; other site 266264012980 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...; Region: LuxR_C_like; cd06170 266264012981 DNA binding residues; other site 266264012982 dimerization interface; other site 266264012983 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 266264012984 Ligand Binding Site; other site 266264012985 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 266264012986 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 266264012987 Ligand Binding Site; other site 266264012988 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 266264012989 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264012990 Beta-Casp domain; Region: Beta-Casp; pfam10996 266264012991 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 266264012992 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 266264012993 Ligand Binding Site; other site 266264012994 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 266264012995 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 266264012996 ligand binding site; other site 266264012997 flexible hinge region; other site 266264012998 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 266264012999 putative switch regulator; other site 266264013000 non-specific DNA interactions; other site 266264013001 DNA binding site; other site 266264013002 sequence specific DNA binding site; other site 266264013003 putative cAMP binding site; other site 266264013004 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 266264013005 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 266264013006 conserved cys residue; other site 266264013007 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264013008 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 266264013009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013010 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 266264013011 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 266264013012 Protein of unknown function DUF58; Region: DUF58; pfam01882 266264013013 MoxR-like ATPases [General function prediction only]; Region: COG0714 266264013014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264013015 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264013016 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 266264013017 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; cl12011 266264013018 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 266264013019 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 266264013020 motif II; other site 266264013021 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 266264013022 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 266264013023 metal ion-dependent adhesion site (MIDAS); other site 266264013024 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 266264013025 TPR motif; other site 266264013026 binding surface; other site 266264013027 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 266264013028 metal ion-dependent adhesion site (MIDAS); other site 266264013029 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 266264013030 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 266264013031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013032 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 266264013033 L-serine binding site; other site 266264013034 ACT domain interface; other site 266264013035 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 266264013036 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 266264013037 DNA binding residues; other site 266264013038 dimer interface; other site 266264013039 [2Fe-2S] cluster binding site; other site 266264013040 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 266264013041 homotrimer interaction site; other site 266264013042 putative active site; other site 266264013043 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013044 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264013045 putative substrate translocation pore; other site 266264013046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013047 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 266264013048 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013049 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 266264013050 putative effector binding pocket; other site 266264013051 putative dimerization interface; other site 266264013052 short chain dehydrogenase; Provisional; Region: PRK12937 266264013053 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013055 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...; Region: gram_neg_porins; cd00342 266264013056 trimer interface; other site 266264013057 eyelet of channel; other site 266264013058 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264013059 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 266264013060 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 266264013061 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 266264013062 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 266264013063 excinuclease ABC, A subunit; Region: uvra; TIGR00630 266264013064 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264013065 Walker A/P-loop; other site 266264013066 ATP binding site; other site 266264013067 Q-loop/lid; other site 266264013068 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 266264013069 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 266264013070 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 266264013071 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 266264013072 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...; Region: B_lectin; cl00039 266264013073 dimerization interface; other site 266264013074 mannose binding site; other site 266264013075 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...; Region: B_lectin; cl00039 266264013076 mannose binding site; other site 266264013077 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 266264013078 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 266264013079 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 266264013080 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013081 EamA-like transporter family; Region: EamA; cl01037 266264013082 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 266264013083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264013085 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013086 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 266264013087 putative dimerization interface; other site 266264013088 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 266264013089 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 catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 266264013090 THF binding site; other site 266264013091 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 266264013092 substrate binding site; other site 266264013093 THF binding site; other site 266264013094 zinc-binding site; other site 266264013095 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 266264013096 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 266264013097 N-terminal plug; other site 266264013098 ligand-binding site; other site 266264013099 Uncharacterized conserved protein [Function unknown]; Region: COG5361 266264013100 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 266264013101 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 266264013102 cytosine deaminase; Provisional; Region: PRK05985 266264013103 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...; Region: Bact_CD; cd01293 266264013104 active site; other site 266264013105 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 266264013106 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264013107 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 266264013108 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 266264013109 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 266264013110 hypothetical protein; Validated; Region: PRK07198 266264013111 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 266264013112 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 266264013113 dimerization interface; other site 266264013114 active site; other site 266264013115 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 266264013116 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264013117 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264013118 active site; other site 266264013119 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 266264013120 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 266264013121 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264013122 active site; other site 266264013123 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...; Region: TM_PBP2; cd06261 266264013124 dimer interface; other site 266264013125 conserved gate region; other site 266264013126 putative PBP binding loops; other site 266264013127 ABC-ATPase subunit interface; other site 266264013128 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...; Region: TM_PBP2; cd06261 266264013129 dimer interface; other site 266264013130 conserved gate region; other site 266264013131 putative PBP binding loops; other site 266264013132 ABC-ATPase subunit interface; other site 266264013133 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 266264013134 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 266264013135 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 266264013136 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 266264013137 Walker A/P-loop; other site 266264013138 ATP binding site; other site 266264013139 Q-loop/lid; other site 266264013140 ABC transporter signature motif; other site 266264013141 Walker B; other site 266264013142 D-loop; other site 266264013143 H-loop/switch region; other site 266264013144 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264013145 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 266264013146 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 266264013147 Walker A/P-loop; other site 266264013148 ATP binding site; other site 266264013149 Q-loop/lid; other site 266264013150 ABC transporter signature motif; other site 266264013151 Walker B; other site 266264013152 D-loop; other site 266264013153 H-loop/switch region; other site 266264013154 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264013155 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264013156 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264013157 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264013158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264013159 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 266264013160 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 266264013161 substrate binding site; other site 266264013162 oxyanion hole (OAH) forming residues; other site 266264013163 trimer interface; other site 266264013164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013165 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264013166 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264013167 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264013168 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...; Region: PBPb; cd00134 266264013169 substrate binding pocket; other site 266264013170 membrane-bound complex binding site; other site 266264013171 hinge residues; other site 266264013172 Dehydratase family; Region: ILVD_EDD; cl00340 266264013173 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 266264013174 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 266264013175 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 266264013176 hypothetical protein; Provisional; Region: PRK02971 266264013177 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 266264013178 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 266264013179 inhibitor-cofactor binding pocket; other site 266264013180 pyridoxal 5'-phosphate binding site; other site 266264013181 catalytic residue; other site 266264013182 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 266264013183 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 266264013184 Ligand binding site; other site 266264013185 Putative Catalytic site; other site 266264013186 DXD motif; other site 266264013187 putative formyltransferase; Provisional; Region: PRK06988 266264013188 Formyl transferase; Region: Formyl_trans_N; cl00395 266264013189 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 266264013190 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 266264013191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013192 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 266264013193 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 266264013194 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 266264013195 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 266264013196 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264013197 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; cl11391 266264013198 Outer membrane efflux protein; Region: OEP; pfam02321 266264013199 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 266264013200 Outer membrane efflux protein; Region: OEP; pfam02321 266264013201 Transposase; Region: Transposase_7; pfam01526 266264013202 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264013203 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 266264013204 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 266264013205 multiple promoter invertase; Provisional; Region: mpi; PRK13413 266264013206 catalytic residues; other site 266264013207 catalytic nucleophile; other site 266264013208 Presynaptic Site I dimer interface; other site 266264013209 Synaptic Antiparallel dimer interface; other site 266264013210 Synaptic Flat tetramer interface; other site 266264013211 Synaptic Site I dimer interface; other site 266264013212 DNA binding site; other site 266264013213 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 266264013214 DNA-binding interface; other site 266264013215 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 266264013216 Permease family; Region: Xan_ur_permease; cl00967 266264013217 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 266264013218 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 266264013219 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 266264013220 Ligand Binding Site; other site 266264013221 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 266264013222 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264013223 DNA-binding site; other site 266264013224 FCD domain; Region: FCD; cl11656 266264013225 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...; Region: PBPb; cd00134 266264013226 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264013227 substrate binding pocket; other site 266264013228 membrane-bound complex binding site; other site 266264013229 hinge residues; other site 266264013230 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...; Region: PBPb; cd00134 266264013231 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264013232 substrate binding pocket; other site 266264013233 membrane-bound complex binding site; other site 266264013234 hinge residues; other site 266264013235 PAS fold; Region: PAS_4; pfam08448 266264013236 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 266264013237 putative active site; other site 266264013238 heme pocket; other site 266264013239 PAS fold; Region: PAS_3; pfam08447 266264013240 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 trans-...; Region: HisKA; cd00082 266264013241 dimer interface; other site 266264013242 phosphorylation site; other site 266264013243 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 266264013244 ATP binding site; other site 266264013245 Mg2+ binding site; other site 266264013246 G-X-G motif; other site 266264013247 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 266264013248 active site; other site 266264013249 phosphorylation site; other site 266264013250 intermolecular recognition site; other site 266264013251 dimerization interface; other site 266264013252 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 266264013253 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 266264013254 homodimer interface; other site 266264013255 substrate-cofactor binding pocket; other site 266264013256 pyridoxal 5'-phosphate binding site; other site 266264013257 catalytic residue; other site 266264013258 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 266264013259 N-terminal plug; other site 266264013260 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 266264013261 ligand-binding site; other site 266264013262 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 266264013263 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...; Region: PBPb; cl11400 266264013264 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 266264013265 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264013266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013267 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264013268 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264013269 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264013270 active site; other site 266264013271 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264013272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264013274 DNA-binding site; other site 266264013275 FCD domain; Region: FCD; cl11656 266264013276 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 266264013277 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 266264013278 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 266264013279 N-terminal plug; other site 266264013280 ligand-binding site; other site 266264013281 NodT family; Region: outer_NodT; TIGR01845 266264013282 Outer membrane efflux protein; Region: OEP; pfam02321 266264013283 Outer membrane efflux protein; Region: OEP; pfam02321 266264013284 multidrug resistance protein MdtN; Provisional; Region: PRK10476 266264013285 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 266264013286 Pseudomonas-type; Region: PC_PLC; TIGR03396 266264013287 Phosphoesterase family; Region: Phosphoesterase; cl10627 266264013288 Domain of unknown function (DUF756); Region: DUF756; pfam05506 266264013289 Domain of unknown function (DUF756); Region: DUF756; pfam05506 266264013290 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 trans-...; Region: HisKA; cd00082 266264013291 phosphorylation site; other site 266264013292 dimer interface; other site 266264013293 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 266264013294 ATP binding site; other site 266264013295 Mg2+ binding site; other site 266264013296 G-X-G motif; other site 266264013297 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 266264013298 active site; other site 266264013299 phosphorylation site; other site 266264013300 intermolecular recognition site; other site 266264013301 dimerization interface; other site 266264013302 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 266264013303 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264013304 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 266264013305 active site; other site 266264013306 phosphorylation site; other site 266264013307 intermolecular recognition site; other site 266264013308 dimerization interface; other site 266264013309 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...; Region: LuxR_C_like; cd06170 266264013310 DNA binding residues; other site 266264013311 dimerization interface; other site 266264013312 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 266264013313 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 266264013314 NADP binding site; other site 266264013315 dimer interface; other site 266264013316 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264013317 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264013318 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...; Region: PBPb; cl11400 266264013319 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 266264013320 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264013321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264013322 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...; Region: CAS_like; cl00184 266264013323 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 266264013324 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 266264013325 active site; other site 266264013326 substrate binding site; other site 266264013327 Mg2+ binding site; other site 266264013328 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 266264013329 Permease family; Region: Xan_ur_permease; cl00967 266264013330 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 266264013331 Cytochrome c; Region: Cytochrom_C; cl11414 266264013332 VPS10 domain; Region: VPS10; smart00602 266264013333 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264013334 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264013335 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264013336 Walker A/P-loop; other site 266264013337 Walker A/P-loop; other site 266264013338 ATP binding site; other site 266264013339 ATP binding site; other site 266264013340 Q-loop/lid; other site 266264013341 ABC transporter signature motif; other site 266264013342 Walker B; other site 266264013343 D-loop; other site 266264013344 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 266264013345 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 266264013346 putative active site; other site 266264013347 putative metal-binding site; other site 266264013348 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 266264013349 Uncharacterized conserved protein [Function unknown]; Region: COG2128 266264013350 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264013351 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...; Region: PBPb; cl11400 266264013352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013353 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264013354 Transcriptional regulators [Transcription]; Region: PurR; COG1609 266264013355 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl02583 266264013356 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_5; cd06281 266264013357 putative dimerization interface; other site 266264013358 putative ligand binding site; other site 266264013359 Fic family protein [Function unknown]; Region: COG3177 266264013360 Fic/DOC family; Region: Fic; cl00960 266264013361 NodT family; Region: outer_NodT; TIGR01845 266264013362 Outer membrane efflux protein; Region: OEP; pfam02321 266264013363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013364 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 266264013365 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,...; Region: Biotinyl_lipoyl_domains; cl11404 266264013366 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013367 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264013368 putative substrate translocation pore; other site 266264013369 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013370 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 266264013371 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 266264013372 active site; other site 266264013373 Argininosuccinate lyase (argininosuccinase, ASAL). This group contains proteins similar to ASAL, a member of the Lyase class I family. Members of this family for the most part catalyze similar beta-elimination reactions in which a C-N or C-O bond is...; Region: Argininosuccinate_lyase; cd01359 266264013374 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 266264013375 active sites; other site 266264013376 tetramer interface; other site 266264013377 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 266264013378 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; cl01116 266264013379 putative transposase OrfB; Reviewed; Region: PHA02517 266264013380 Integrase core domain; Region: rve; cl01316 266264013381 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 266264013382 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 266264013383 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 266264013384 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 266264013385 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264013386 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 266264013387 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...; Region: Sigma70_r4; cd06171 266264013388 DNA binding residues; other site 266264013389 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 266264013390 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 266264013391 spermidine synthase; Provisional; Region: PRK04457 266264013392 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 266264013393 S-adenosylmethionine binding site; other site 266264013394 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 266264013395 dimerization domain swap beta strand; other site 266264013396 regulatory protein interface; other site 266264013397 active site; other site 266264013398 regulatory phosphorylation site; other site 266264013399 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 266264013400 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 266264013401 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 266264013402 hydrogenase 4 subunit F; Validated; Region: PRK06458 266264013403 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 266264013404 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl12087 266264013405 NADH dehydrogenase; Region: NADHdh; cl00469 266264013406 hydrogenase 4 subunit B; Validated; Region: PRK06521 266264013407 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 266264013408 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 266264013409 putative active site; other site 266264013410 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 266264013411 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 266264013412 Muconolactone delta-isomerase; Region: MIase; cl01992 266264013413 Putative cyclase; Region: Cyclase; cl00814 266264013414 YCII-related domain; Region: YCII; cl00999 266264013415 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; cl09110 266264013416 DoxX; Region: DoxX; cl00976 266264013417 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 266264013418 Protein of unknown function (DUF692); Region: DUF692; cl01263 266264013419 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 266264013420 RNA polymerase sigma factor; Provisional; Region: PRK12536 266264013421 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 266264013422 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...; Region: Sigma70_r4; cl01055 266264013423 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 266264013424 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 266264013425 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 266264013426 active site; other site 266264013427 nucleophile elbow; other site 266264013428 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; cl09110 266264013429 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; cl09110 266264013430 Intracellular septation protein A; Region: IspA; cl01098 266264013431 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 266264013432 N-acetyl-D-glucosamine binding site; other site 266264013433 catalytic residue; other site 266264013434 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 266264013435 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK02998 266264013436 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 266264013437 Cu(I) binding site; other site 266264013438 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 266264013439 Multicopper oxidase; Region: Cu-oxidase; cl11412 266264013440 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 266264013441 Multicopper oxidase; Region: Cu-oxidase; cl11412 266264013442 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 266264013443 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 266264013444 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 266264013445 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 266264013446 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 266264013447 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 266264013448 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 266264013449 ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 266264013450 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 266264013451 Walker A motif; other site 266264013452 ATP binding site; other site 266264013453 Walker B motif; other site 266264013454 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 266264013455 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264013456 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 266264013457 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 266264013458 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 266264013459 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 266264013460 PAS fold; Region: PAS; pfam00989 266264013461 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 266264013462 putative active site; other site 266264013463 heme pocket; other site 266264013464 Histidine kinase; Region: HisKA_3; pfam07730 266264013465 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 266264013466 ATP binding site; other site 266264013467 Mg2+ binding site; other site 266264013468 G-X-G motif; other site 266264013469 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264013470 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 266264013471 active site; other site 266264013472 phosphorylation site; other site 266264013473 intermolecular recognition site; other site 266264013474 dimerization interface; other site 266264013475 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...; Region: LuxR_C_like; cd06170 266264013476 DNA binding residues; other site 266264013477 dimerization interface; other site 266264013478 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 266264013479 Cupin domain; Region: Cupin_2; cl09118 266264013480 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264013481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264013482 hypothetical protein; Provisional; Region: PRK06489 266264013483 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 266264013484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264013485 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264013486 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 266264013487 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264013488 Active site; other site 266264013489 signature motif; other site 266264013490 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264013491 Active site; other site 266264013492 signature motif; other site 266264013493 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264013494 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 266264013495 active site; other site 266264013496 phosphorylation site; other site 266264013497 intermolecular recognition site; other site 266264013498 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...; Region: trans_reg_C; cd00383 266264013499 DNA binding site; other site 266264013500 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 266264013501 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain...; Region: CBS_pair_GGDEF_assoc; cd04598 266264013502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264013503 metal binding site; other site 266264013504 active site; other site 266264013505 I-site; other site 266264013506 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 266264013507 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264013508 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 266264013509 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 266264013510 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264013511 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264013512 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264013513 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013514 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264013515 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264013516 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 266264013517 putative substrate binding pocket; other site 266264013518 trimer interface; other site 266264013519 galactarate dehydratase; Region: galactar-dH20; TIGR03248 266264013520 SAF domain; Region: SAF; cl00555 266264013521 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013522 d-galactonate transporter; Region: 2A0114; TIGR00893 266264013523 putative substrate translocation pore; other site 266264013524 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in...; Region: KDGDH; cd00951 266264013525 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 266264013526 putative active site; other site 266264013527 catalytic residue; other site 266264013528 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 266264013529 tetramer interface; other site 266264013530 active site; other site 266264013531 Mg2+/Mn2+ binding site; other site 266264013532 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 266264013533 Cupin domain; Region: Cupin_2; cl09118 266264013534 NnrU protein; Region: NnrU; cl01697 266264013535 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 266264013536 Coenzyme A binding pocket; other site 266264013537 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 266264013538 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 266264013539 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 higher-...; Region: HU_IHF; cl00257 266264013540 Protein of unknown function (DUF962); Region: DUF962; cl01879 266264013541 N-acetyltransferase; Region: Acetyltransf_2; cl00949 266264013542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013543 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 266264013544 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 266264013545 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264013546 CreA protein; Region: CreA; cl01154 266264013547 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...; Region: BFIT_BACH; cd03442 266264013548 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 higher...; Region: HU_IHF; cd00591 266264013549 IHF dimer interface; other site 266264013550 IHF - DNA interface; other site 266264013551 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 266264013552 Mechanosensitive ion channel; Region: MS_channel; pfam00924 266264013553 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013554 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 266264013555 putative substrate translocation pore; other site 266264013556 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 266264013557 Ligand binding site; other site 266264013558 DXD motif; other site 266264013559 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 266264013560 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl01208 266264013561 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 266264013562 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 266264013563 FMN riboswitch 266264013564 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 266264013565 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 266264013566 non-specific DNA binding site; other site 266264013567 salt bridge; other site 266264013568 sequence-specific DNA binding site; other site 266264013569 Protein of unknown function (DUF465); Region: DUF465; cl01070 266264013570 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 266264013571 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 266264013572 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264013573 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 266264013574 Domain of unknown function DUF21; Region: DUF21; pfam01595 266264013575 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 266264013576 Transporter associated domain; Region: CorC_HlyC; pfam03471 266264013577 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 266264013578 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 266264013579 Entericidin EcnA/B family; Region: Entericidin; cl02322 266264013580 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 266264013581 KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best...; Region: KDPG_aldolase; cd00452 266264013582 active site; other site 266264013583 intersubunit interface; other site 266264013584 catalytic residue; other site 266264013585 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 266264013586 substrate binding site; other site 266264013587 ATP binding site; other site 266264013588 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 266264013589 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 266264013590 dimer interface; other site 266264013591 active site; other site 266264013592 pyridoxal 5'-phosphate (PLP) binding site; other site 266264013593 substrate binding site; other site 266264013594 catalytic residue; other site 266264013595 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 266264013596 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...; Region: SIS_RpiR; cd05013 266264013597 putative active site; other site 266264013598 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 266264013599 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 266264013600 active site; other site 266264013601 putative substrate binding pocket; other site 266264013602 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 266264013603 homotrimer interaction site; other site 266264013604 putative active site; other site 266264013605 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; cl09110 266264013606 gluconate transporter; Region: gntP; TIGR00791 266264013607 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 266264013608 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 266264013609 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264013610 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 266264013611 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 266264013612 Walker A/P-loop; other site 266264013613 ATP binding site; other site 266264013614 Q-loop/lid; other site 266264013615 ABC transporter signature motif; other site 266264013616 Walker B; other site 266264013617 D-loop; other site 266264013618 H-loop/switch region; other site 266264013619 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 266264013620 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 266264013621 Walker A/P-loop; other site 266264013622 ATP binding site; other site 266264013623 Q-loop/lid; other site 266264013624 ABC transporter signature motif; other site 266264013625 Walker B; other site 266264013626 D-loop; other site 266264013627 H-loop/switch region; other site 266264013628 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 266264013629 TM-ABC transporter signature motif; other site 266264013630 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 266264013631 TM-ABC transporter signature motif; other site 266264013632 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...; Region: Aldo_ket_red; cd06660 266264013633 active site; other site 266264013634 catalytic tetrad; other site 266264013635 TLC ATP/ADP transporter; Region: TLC; cl03940 266264013636 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 266264013637 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 266264013638 substrate binding site; other site 266264013639 catalytic Zn binding site; other site 266264013640 NAD binding site; other site 266264013641 structural Zn binding site; other site 266264013642 dimer interface; other site 266264013643 Predicted esterase [General function prediction only]; Region: COG0627 266264013644 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 266264013645 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 266264013646 amidase; Provisional; Region: PRK07486 266264013647 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; cl11426 266264013648 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264013649 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...; Region: PBPb; cl11400 266264013650 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 266264013651 Outer membrane efflux protein; Region: OEP; pfam02321 266264013652 Outer membrane efflux protein; Region: OEP; pfam02321 266264013653 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 266264013654 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 266264013655 Fusaric acid resistance protein family; Region: FUSC; pfam04632 266264013656 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013657 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 266264013658 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 266264013659 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 266264013660 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 266264013661 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 266264013662 RHS Repeat; Region: RHS_repeat; cl11982 266264013663 RHS Repeat; Region: RHS_repeat; cl11982 266264013664 RHS Repeat; Region: RHS_repeat; cl11982 266264013665 RHS Repeat; Region: RHS_repeat; cl11982 266264013666 RHS Repeat; Region: RHS_repeat; cl11982 266264013667 RHS Repeat; Region: RHS_repeat; cl11982 266264013668 RHS Repeat; Region: RHS_repeat; cl11982 266264013669 RHS protein; Region: RHS; pfam03527 266264013670 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 266264013671 Uncharacterized conserved protein [Function unknown]; Region: COG4104 266264013672 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 266264013673 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 266264013674 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), 8-amino-7-...; Region: KBL_like; cd06454 266264013675 substrate-cofactor binding pocket; other site 266264013676 pyridoxal 5'-phosphate binding site; other site 266264013677 catalytic residue; other site 266264013678 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 266264013679 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 266264013680 sequence-specific DNA binding site; other site 266264013681 salt bridge; other site 266264013682 Cupin domain; Region: Cupin_2; cl09118 266264013683 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 266264013684 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 266264013685 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 266264013686 Phosphoesterase family; Region: Phosphoesterase; cl10627 266264013687 benzoate transport; Region: 2A0115; TIGR00895 266264013688 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013691 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264013692 threonine and homoserine efflux system; Provisional; Region: PRK10532 266264013693 EamA-like transporter family; Region: EamA; cl01037 266264013694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013695 nitrate transmembrane transporter; Provisional; Region: PLN00028 266264013696 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013697 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 266264013698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013699 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 266264013700 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 266264013701 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...; Region: Rieske_NirD; cd03529 266264013702 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 266264013703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013704 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 266264013705 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 oxidation via a membrane-anchored...; Region: MopB_Nitrate-R-NapA-like; cd02754 266264013706 [4Fe-4S] binding site; other site 266264013707 molybdopterin cofactor binding site; other site 266264013708 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 oxidation via a membrane-anchored...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 266264013709 molybdopterin cofactor binding site; other site 266264013710 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 266264013711 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 266264013712 conserved hypothetical protein TIGR03549; Region: TIGR03549 266264013713 OsmC-like protein; Region: OsmC; cl00767 266264013714 YcaO-like family; Region: YcaO; cl09146 266264013715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 266264013716 YheO-like PAS domain; Region: PAS_6; pfam08348 266264013717 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 266264013718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013719 serine racemase; Region: PLN02970 266264013720 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 266264013721 tetramer interface; other site 266264013722 pyridoxal 5'-phosphate binding site; other site 266264013723 catalytic residue; other site 266264013724 multidrug efflux system protein MdtE; Provisional; Region: PRK10504 266264013725 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013726 putative substrate translocation pore; other site 266264013727 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 266264013728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013729 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 266264013730 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 266264013731 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 266264013732 active site; other site 266264013733 phosphorylation site; other site 266264013734 intermolecular recognition site; other site 266264013735 dimerization interface; other site 266264013736 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...; Region: trans_reg_C; cd00383 266264013737 DNA binding site; other site 266264013738 sensor protein QseC; Provisional; Region: PRK10337 266264013739 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 trans-...; Region: HisKA; cd00082 266264013740 dimer interface; other site 266264013741 phosphorylation site; other site 266264013742 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 266264013743 ATP binding site; other site 266264013744 Mg2+ binding site; other site 266264013745 G-X-G motif; other site 266264013746 Chromate transporter; Region: Chromate_transp; cl00902 266264013747 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 266264013748 Chromate transporter; Region: Chromate_transp; cl00902 266264013749 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 266264013750 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...; Region: gram_neg_porins; cd00342 266264013751 trimer interface; other site 266264013752 eyelet of channel; other site 266264013753 Transglycosylase; Region: Transgly; cl07896 266264013754 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 266264013755 peptidoglycan synthetase; Provisional; Region: mrcA; PRK11636 266264013756 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 266264013757 Protein of unknown function (DUF1501); Region: DUF1501; cl01699 266264013758 Protein of unknown function (DUF1800); Region: DUF1800; cl02181 266264013759 Transcriptional regulators [Transcription]; Region: PurR; COG1609 266264013760 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 266264013761 DNA binding site; other site 266264013762 domain linker motif; other site 266264013763 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 266264013764 putative dimerization interface; other site 266264013765 putative ligand binding site; other site 266264013766 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 266264013767 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 266264013768 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...; Region: TM_PBP2; cd06261 266264013769 dimer interface; other site 266264013770 conserved gate region; other site 266264013771 putative PBP binding loops; other site 266264013772 ABC-ATPase subunit interface; other site 266264013773 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...; Region: TM_PBP2; cd06261 266264013774 dimer interface; other site 266264013775 conserved gate region; other site 266264013776 putative PBP binding loops; other site 266264013777 ABC-ATPase subunit interface; other site 266264013778 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 266264013779 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264013780 Walker A/P-loop; other site 266264013781 ATP binding site; other site 266264013782 Q-loop/lid; other site 266264013783 ABC transporter signature motif; other site 266264013784 Walker B; other site 266264013785 D-loop; other site 266264013786 H-loop/switch region; other site 266264013787 TOBE domain; Region: TOBE_2; cl01440 266264013788 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 266264013789 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 266264013790 active site; other site 266264013791 metal binding site; other site 266264013792 hexamer interface; other site 266264013793 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 266264013794 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 266264013795 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 266264013796 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 266264013797 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 266264013798 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 266264013799 PhnA protein; Region: PhnA; pfam03831 266264013800 EamA-like transporter family; Region: EamA; cl01037 266264013801 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 266264013802 EamA-like transporter family; Region: EamA; cl01037 266264013803 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264013804 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013805 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 266264013806 putative effector binding pocket; other site 266264013807 dimerization interface; other site 266264013808 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264013809 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 266264013810 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 266264013811 NAD(P) binding site; other site 266264013812 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...; Region: PBPb; cl11400 266264013813 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264013814 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 266264013815 active site; other site 266264013816 phosphorylation site; other site 266264013817 intermolecular recognition site; other site 266264013818 dimerization interface; other site 266264013819 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...; Region: LuxR_C_like; cd06170 266264013820 DNA binding residues; other site 266264013821 dimerization interface; other site 266264013822 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 266264013823 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 trans...; Region: HisKA; cd00082 266264013824 dimer interface; other site 266264013825 phosphorylation site; other site 266264013826 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 266264013827 ATP binding site; other site 266264013828 Mg2+ binding site; other site 266264013829 G-X-G motif; other site 266264013830 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 266264013831 active site; other site 266264013832 phosphorylation site; other site 266264013833 intermolecular recognition site; other site 266264013834 dimerization interface; other site 266264013835 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 266264013836 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 266264013837 NAD(P) binding site; other site 266264013838 catalytic residues; other site 266264013839 Protein of unknown function (DUF465); Region: DUF465; cl01070 266264013840 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 266264013841 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 266264013842 active site; other site 266264013843 FMN binding site; other site 266264013844 substrate binding site; other site 266264013845 homotetramer interface; other site 266264013846 catalytic residue; other site 266264013847 Penicillin amidase; Region: Penicil_amidase; pfam01804 266264013848 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 four-...; Region: Ntn_hydrolase; cl00467 266264013849 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and 7-...; Region: Ntn_CA; cd01936 266264013850 active site; other site 266264013851 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 four-...; Region: Ntn_hydrolase; cl00467 266264013852 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 266264013853 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 266264013854 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 266264013855 NodT family; Region: outer_NodT; TIGR01845 266264013856 Outer membrane efflux protein; Region: OEP; pfam02321 266264013857 Outer membrane efflux protein; Region: OEP; pfam02321 266264013858 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 266264013859 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264013860 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 266264013861 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 266264013862 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10632 266264013863 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013864 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 266264013865 putative effector binding pocket; other site 266264013866 putative dimerization interface; other site 266264013867 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264013868 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 266264013869 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 266264013870 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 266264013871 conserved cys residue; other site 266264013872 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264013873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264013874 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 266264013875 Putative phospholipid-binding domain; Region: BON; cl02771 266264013876 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 266264013877 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 266264013878 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 266264013879 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 266264013880 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...; Region: PBPb; cl11400 266264013881 Muconolactone delta-isomerase; Region: MIase; cl01992 266264013882 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-...; Region: MLE; cd03318 266264013883 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 266264013884 octamer interface; other site 266264013885 active site; other site 266264013886 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 266264013887 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013888 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 266264013889 dimerization interface; other site 266264013890 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 266264013891 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013892 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 266264013893 dimerizarion interface; other site 266264013894 CrgA pocket; other site 266264013895 substrate binding pocket; other site 266264013896 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 266264013897 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 266264013898 dimer interface; other site 266264013899 active site; other site 266264013900 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 266264013901 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 266264013902 Ring hydroxylating alpha subunit (catalytic domain). This CD includes the catalytic domain (alpha) of aromatic-ring-hydroxylating dioxygenase systems of eubacteria. Eubacterial ring hydroxylating dioxygenases are multicomponent 1,2-dioxygenase...; Region: Ring_hydroxylating_alpha; cd00680 266264013903 interface residues; other site 266264013904 active site; other site 266264013905 substrate binding pocket; other site 266264013906 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 266264013907 inter-subunit interface; other site 266264013908 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 266264013909 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 266264013910 catalytic loop; other site 266264013911 iron binding site; other site 266264013912 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 266264013913 FAD binding pocket; other site 266264013914 FAD binding motif; other site 266264013915 phosphate binding motif; other site 266264013916 beta-alpha-beta structure motif; other site 266264013917 NAD binding pocket; other site 266264013918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013919 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264013920 OpgC protein; Region: OpgC_C; cl10497 266264013921 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264013922 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264013923 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 266264013924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013925 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 266264013926 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 266264013927 catalytic triad; other site 266264013928 dimer interface; other site 266264013929 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 266264013930 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264013931 dipeptidase PepV; Reviewed; Region: PRK07318 266264013932 sulfite:cytochrome c oxidoreductase subunit A (SorA), molybdopterin binding domain. SorA is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SorB, a small c-type heme containing subunit, it forms a hetrodimer...; Region: bact_SorA_Moco; cd02114 266264013933 Moco binding site; other site 266264013934 metal coordination site; other site 266264013935 putative dimerization interface; other site 266264013936 Cytochrome c; Region: Cytochrom_C; cl11414 266264013937 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 266264013938 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 266264013939 ligand binding site; other site 266264013940 flexible hinge region; other site 266264013941 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 266264013942 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 266264013943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013945 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 266264013946 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 266264013947 Coenzyme A transferase; Region: CoA_trans; cl00773 266264013948 Predicted ATPase [General function prediction only]; Region: COG3910 266264013949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264013950 Walker A/P-loop; other site 266264013951 ATP binding site; other site 266264013952 Q-loop/lid; other site 266264013953 ABC transporter signature motif; other site 266264013954 Walker B; other site 266264013955 D-loop; other site 266264013956 H-loop/switch region; other site 266264013957 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 266264013958 active site; other site 266264013959 nucleophile elbow; other site 266264013960 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 266264013961 non-specific DNA binding site; other site 266264013962 salt bridge; other site 266264013963 sequence-specific DNA binding site; other site 266264013964 HipA N-terminal domain; Region: couple_hipA; TIGR03071 266264013965 HipA-like N-terminal domain; Region: HipA_N; pfam07805 266264013966 HipA-like C-terminal domain; Region: HipA_C; pfam07804 266264013967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264013968 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 266264013969 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264013970 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264013971 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264013972 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264013973 putative substrate translocation pore; other site 266264013974 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264013975 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264013976 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 266264013977 putative dimerization interface; other site 266264013978 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264013979 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264013980 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264013981 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264013982 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 266264013983 NosL; Region: NosL; cl01769 266264013984 NosL; Region: NosL; cl01769 266264013985 ABC-2 type transporter; Region: ABC2_membrane; cl11417 266264013986 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 266264013987 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 266264013988 Walker A/P-loop; other site 266264013989 ATP binding site; other site 266264013990 Q-loop/lid; other site 266264013991 ABC transporter signature motif; other site 266264013992 Walker B; other site 266264013993 D-loop; other site 266264013994 H-loop/switch region; other site 266264013995 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 266264013996 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 266264013997 FMN-binding domain; Region: FMN_bind; cl01081 266264013998 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 266264013999 nitrous-oxide reductase; Validated; Region: PRK02888 266264014000 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 266264014001 Cytochrome c; Region: Cytochrom_C; cl11414 266264014002 ApbE family; Region: ApbE; cl00643 266264014003 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 266264014004 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 266264014005 putative acyl-acceptor binding pocket; other site 266264014006 DGC domain; Region: DGC; cl01742 266264014007 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 two-...; Region: SirA_YedF_YeeD; cl00436 266264014008 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 266264014009 catalytic residues; other site 266264014010 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 266264014011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014012 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 266264014013 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264014014 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 266264014015 Amino acid permease; Region: AA_permease; pfam00324 266264014016 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 266264014017 pyridoxal 5'-phosphate binding site; other site 266264014018 homodimer interface; other site 266264014019 catalytic residue; other site 266264014020 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 266264014021 Amino acid permease; Region: AA_permease; pfam00324 266264014022 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...; Region: GST_N_Ure2p_like; cd03048 266264014023 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 266264014024 C-terminal domain interface; other site 266264014025 GSH binding site (G-site); other site 266264014026 dimer interface; other site 266264014027 GST_C 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...; Region: GST_C_Ure2p_like; cd03178 266264014028 dimer interface; other site 266264014029 N-terminal domain interface; other site 266264014030 putative substrate binding pocket (H-site); other site 266264014031 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264014032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014033 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264014034 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...; Region: PBPb; cl11400 266264014035 Cytochrome P450; Region: p450; cl12078 266264014036 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 266264014037 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-...; Region: PDR_like; cd06185 266264014038 FMN-binding pocket; other site 266264014039 flavin binding motif; other site 266264014040 phosphate binding motif; other site 266264014041 beta-alpha-beta structure motif; other site 266264014042 NAD binding pocket; other site 266264014043 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 266264014044 catalytic loop; other site 266264014045 iron binding site; other site 266264014046 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 266264014047 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 266264014048 active site; other site 266264014049 phosphorylation site; other site 266264014050 intermolecular recognition site; other site 266264014051 dimerization interface; other site 266264014052 Permease family; Region: Xan_ur_permease; cl00967 266264014053 H-NS histone family; Region: Histone_HNS; pfam00816 266264014054 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 266264014055 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 266264014056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014057 SCP-2 sterol transfer family; Region: SCP2; cl01225 266264014058 Peptidase family U32; Region: Peptidase_U32; pfam01136 266264014059 Peptidase family U32; Region: Peptidase_U32; pfam01136 266264014060 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264014061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014062 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264014063 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 266264014064 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 266264014065 tetramerization interface; other site 266264014066 NAD(P) binding site; other site 266264014067 catalytic residues; other site 266264014068 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 266264014069 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 266264014070 putative active site; other site 266264014071 metal binding site; other site 266264014072 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...; Region: PRCH; cl09959 266264014073 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA)...; Region: CCL_ACL-C; cd06100 266264014074 active site; other site 266264014075 oxalacetate binding site; other site 266264014076 citrylCoA binding site; other site 266264014077 coenzyme A binding site; other site 266264014078 catalytic triad; other site 266264014079 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...; Region: PBPb; cl11400 266264014080 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264014081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014082 acyl-CoA synthetase; Validated; Region: PRK06188 266264014083 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264014084 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl02583 266264014085 Transcriptional regulators [Transcription]; Region: PurR; COG1609 266264014086 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_5; cd06281 266264014087 putative dimerization interface; other site 266264014088 putative ligand binding site; other site 266264014089 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...; Region: PBPb; cl11400 266264014090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014091 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264014092 Putative cyclase; Region: Cyclase; cl00814 266264014093 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 266264014094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264014095 DNA-binding site; other site 266264014096 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 266264014097 pyridoxal 5'-phosphate binding site; other site 266264014098 homodimer interface; other site 266264014099 catalytic residue; other site 266264014100 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 266264014101 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 266264014102 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 266264014103 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 266264014104 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 266264014105 Fimbrial Usher protein; Region: Usher; pfam00577 266264014106 putative chaperone protein EcpD; Provisional; Region: PRK09926 266264014107 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 266264014108 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 266264014109 Fimbrial protein; Region: Fimbrial; cl01416 266264014110 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 266264014111 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 266264014112 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 trans-...; Region: HisKA; cd00082 266264014113 dimer interface; other site 266264014114 phosphorylation site; other site 266264014115 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 266264014116 ATP binding site; other site 266264014117 Mg2+ binding site; other site 266264014118 G-X-G motif; other site 266264014119 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 266264014120 active site; other site 266264014121 phosphorylation site; other site 266264014122 intermolecular recognition site; other site 266264014123 dimerization interface; other site 266264014124 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264014125 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...; Region: LuxR_C_like; cd06170 266264014126 DNA binding residues; other site 266264014127 dimerization interface; other site 266264014128 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264014129 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 266264014130 active site; other site 266264014131 phosphorylation site; other site 266264014132 intermolecular recognition site; other site 266264014133 dimerization interface; other site 266264014134 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...; Region: LuxR_C_like; cd06170 266264014135 DNA binding residues; other site 266264014136 dimerization interface; other site 266264014137 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 266264014138 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...; Region: PBPb; cd00134 266264014139 substrate binding pocket; other site 266264014140 membrane-bound complex binding site; other site 266264014141 hinge residues; other site 266264014142 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 trans-...; Region: HisKA; cd00082 266264014143 dimer interface; other site 266264014144 phosphorylation site; other site 266264014145 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 266264014146 ATP binding site; other site 266264014147 Mg2+ binding site; other site 266264014148 G-X-G motif; other site 266264014149 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 266264014150 active site; other site 266264014151 phosphorylation site; other site 266264014152 intermolecular recognition site; other site 266264014153 dimerization interface; other site 266264014154 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 266264014155 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 266264014156 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...; Region: PBPb; cl11400 266264014157 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264014158 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264014159 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 266264014160 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 266264014161 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264014162 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 266264014163 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 266264014164 carboxyltransferase (CT) interaction site; other site 266264014165 biotinylation site; other site 266264014166 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 266264014167 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264014168 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 266264014169 Integrase core domain; Region: rve; cl01316 266264014170 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 266264014171 Bacterial TniB protein; Region: TniB; pfam05621 266264014172 TniQ; Region: TniQ; pfam06527 266264014173 multiple promoter invertase; Provisional; Region: mpi; PRK13413 266264014174 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 266264014175 catalytic residues; other site 266264014176 catalytic nucleophile; other site 266264014177 Presynaptic Site I dimer interface; other site 266264014178 Synaptic Antiparallel dimer interface; other site 266264014179 Synaptic Flat tetramer interface; other site 266264014180 Synaptic Site I dimer interface; other site 266264014181 DNA binding site; other site 266264014182 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 266264014183 DNA-binding interface; other site 266264014184 EamA-like transporter family; Region: EamA; cl01037 266264014185 sensor protein QseC; Provisional; Region: PRK10337 266264014186 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 trans-...; Region: HisKA; cd00082 266264014187 dimer interface; other site 266264014188 phosphorylation site; other site 266264014189 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 266264014190 ATP binding site; other site 266264014191 Mg2+ binding site; other site 266264014192 G-X-G motif; other site 266264014193 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264014194 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 266264014195 active site; other site 266264014196 phosphorylation site; other site 266264014197 intermolecular recognition site; other site 266264014198 dimerization interface; other site 266264014199 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...; Region: trans_reg_C; cd00383 266264014200 DNA binding site; other site 266264014201 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 266264014202 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264014203 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264014204 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 266264014205 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264014206 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264014207 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264014208 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264014209 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 266264014210 active site; other site 266264014211 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 266264014212 EamA-like transporter family; Region: EamA; cl01037 266264014213 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 266264014214 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 266264014215 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264014216 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 266264014217 active site; other site 266264014218 phosphorylation site; other site 266264014219 intermolecular recognition site; other site 266264014220 dimerization interface; other site 266264014221 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...; Region: LuxR_C_like; cd06170 266264014222 DNA binding residues; other site 266264014223 dimerization interface; other site 266264014224 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 266264014225 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 266264014226 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 266264014227 ATP binding site; other site 266264014228 Mg2+ binding site; other site 266264014229 G-X-G motif; other site 266264014230 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...; Region: PBPb; cl11400 266264014231 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 266264014232 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 266264014233 generic binding surface I; other site 266264014234 generic binding surface II; other site 266264014235 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...; Region: gram_neg_porins; cd00342 266264014236 trimer interface; other site 266264014237 eyelet of channel; other site 266264014238 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 266264014239 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264014240 putative substrate translocation pore; other site 266264014241 benzoate transport; Region: 2A0115; TIGR00895 266264014242 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264014243 putative substrate translocation pore; other site 266264014244 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...; Region: gram_neg_porins; cd00342 266264014245 eyelet of channel; other site 266264014246 trimer interface; other site 266264014248 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 266264014249 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 266264014250 Uncharacterized conserved protein [Function unknown]; Region: COG5361 266264014251 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 266264014252 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 266264014253 Uncharacterized conserved protein [Function unknown]; Region: COG5361 266264014254 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 266264014255 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 266264014256 H+ Antiporter protein; Region: 2A0121; TIGR00900 266264014257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264014258 putative substrate translocation pore; other site 266264014259 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014260 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 266264014261 Isochorismatase family; Region: Isochorismatase; pfam00857 266264014262 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 266264014263 catalytic triad; other site 266264014264 conserved cis-peptide bond; other site 266264014265 CsbD-like; Region: CsbD; cl01272 266264014266 Predicted flavoproteins [General function prediction only]; Region: COG2081 266264014267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014269 Domain of unknown function (DU1801); Region: DUF1801; cl01838 266264014270 mercuric reductase; Validated; Region: PRK06370 266264014271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014272 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 266264014273 Cupin domain; Region: Cupin_2; cl09118 266264014274 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 266264014275 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 266264014276 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...; Region: Aldo_ket_red; cd06660 266264014277 active site; other site 266264014278 catalytic tetrad; other site 266264014279 choline dehydrogenase; Validated; Region: PRK02106 266264014280 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 266264014281 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 266264014282 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 266264014283 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 266264014284 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 266264014285 NAD binding site; other site 266264014286 catalytic residues; other site 266264014287 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264014288 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 266264014289 CoenzymeA binding site; other site 266264014290 subunit interaction site; other site 266264014291 PHB binding site; other site 266264014292 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 266264014293 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...; Region: LuxR_C_like; cd06170 266264014294 DNA binding residues; other site 266264014295 dimerization interface; other site 266264014296 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 266264014297 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...; Region: LuxR_C_like; cd06170 266264014298 DNA binding residues; other site 266264014299 dimerization interface; other site 266264014300 feruloyl-CoA synthase; Reviewed; Region: PRK08180 266264014301 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264014302 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264014303 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264014304 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264014305 active site; other site 266264014306 lipid-transfer protein; Provisional; Region: PRK08256 266264014307 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264014308 active site; other site 266264014309 (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 266264014310 active site; other site 266264014311 catalytic site; other site 266264014312 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 266264014313 active site; other site 266264014314 catalytic site; other site 266264014315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014316 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264014317 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 266264014318 active site; other site 266264014319 catalytic triad; other site 266264014320 oxyanion hole; other site 266264014321 Outer membrane efflux protein; Region: OEP; pfam02321 266264014322 Outer membrane efflux protein; Region: OEP; pfam02321 266264014323 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 266264014324 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 266264014325 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 266264014326 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 266264014327 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 266264014328 CoenzymeA binding site; other site 266264014329 subunit interaction site; other site 266264014330 PHB binding site; other site 266264014331 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...; Region: PBPb; cl11400 266264014332 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 266264014333 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 266264014334 PYR/PP interface; other site 266264014335 dimer interface; other site 266264014336 TPP binding site; other site 266264014337 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 266264014338 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...; Region: TPP_enzymes; cd00568 266264014339 TPP-binding site; other site 266264014340 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264014341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264014342 DNA-binding site; other site 266264014343 FCD domain; Region: FCD; cl11656 266264014344 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264014345 metal binding site; other site 266264014346 active site; other site 266264014347 I-site; other site 266264014348 Phasin protein; Region: Phasin_2; cl11491 266264014349 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 266264014350 Mechanosensitive ion channel; Region: MS_channel; pfam00924 266264014351 Arginase family; Region: Arginase; cl00306 266264014352 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 266264014353 Amino acid permease; Region: AA_permease; pfam00324 266264014354 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 266264014355 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL) and. PAL and HAL are members of the Lyase class I_like superfamily of enzymes that, catalyze similar beta-elimination reactions and are active as homotetramers. The four active sites...; Region: PAL-HAL; cd00332 266264014356 active sites; other site 266264014357 tetramer interface; other site 266264014358 urocanate hydratase; Provisional; Region: PRK05414 266264014359 urocanate hydratase; Region: hutU; TIGR01228 266264014360 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 266264014361 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264014362 DNA-binding site; other site 266264014363 UTRA domain; Region: UTRA; cl06649 266264014364 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 266264014365 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264014366 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 266264014367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264014368 Walker A/P-loop; other site 266264014369 ATP binding site; other site 266264014370 Q-loop/lid; other site 266264014371 ABC transporter signature motif; other site 266264014372 Walker B; other site 266264014373 D-loop; other site 266264014374 H-loop/switch region; other site 266264014375 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...; Region: ABCF_EF-3; cd03221 266264014376 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 266264014377 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 266264014378 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...; Region: APP_MetAP; cl00279 266264014379 active site; other site 266264014380 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...; Region: PBPb; cl11400 266264014381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 266264014382 Patatin phospholipase; Region: DUF3734; pfam12536 266264014383 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264014384 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...; Region: PBPb; cl11400 266264014385 Coenzyme A transferase; Region: CoA_trans; cl00773 266264014386 Coenzyme A transferase; Region: CoA_trans; cl00773 266264014387 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...; Region: PBPb; cl11400 266264014388 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl01383 266264014389 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 266264014390 Active site; other site 266264014391 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 266264014392 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 266264014393 active site; other site 266264014394 dimer interface; other site 266264014395 metal binding site; other site 266264014396 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 266264014397 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264014398 putative substrate translocation pore; other site 266264014399 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 266264014400 O-methyltransferase; Region: Methyltransf_2; pfam00891 266264014401 methionine synthase; Provisional; Region: PRK01207 266264014402 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 266264014403 substrate binding site; other site 266264014404 THF binding site; other site 266264014405 zinc-binding site; other site 266264014406 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 266264014407 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264014408 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 266264014409 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 266264014410 Domain of unknown function (DUF802); Region: DUF802; pfam05650 266264014411 hypothetical protein; Provisional; Region: PRK09040 266264014412 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 266264014413 ligand binding site; other site 266264014414 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 266264014415 Cupin domain; Region: Cupin_2; cl09118 266264014416 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 266264014417 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 266264014418 non-specific DNA binding site; other site 266264014419 salt bridge; other site 266264014420 sequence-specific DNA binding site; other site 266264014421 Cupin domain; Region: Cupin_2; cl09118 266264014422 FAD dependent oxidoreductase; Region: DAO; pfam01266 266264014423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014424 Uncharacterized conserved protein [Function unknown]; Region: COG5476 266264014425 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 266264014426 MlrC C-terminus; Region: MlrC_C; pfam07171 266264014427 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_16; cd08502 266264014428 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 266264014429 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...; Region: TM_PBP2; cd06261 266264014430 dimer interface; other site 266264014431 conserved gate region; other site 266264014432 putative PBP binding loops; other site 266264014433 ABC-ATPase subunit interface; other site 266264014434 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,...; Region: TM_PBP2; cl00427 266264014435 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 266264014436 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 266264014437 Walker A/P-loop; other site 266264014438 ATP binding site; other site 266264014439 Q-loop/lid; other site 266264014440 ABC transporter signature motif; other site 266264014441 Walker B; other site 266264014442 D-loop; other site 266264014443 H-loop/switch region; other site 266264014444 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264014445 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 266264014446 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 266264014447 Walker A/P-loop; other site 266264014448 ATP binding site; other site 266264014449 Q-loop/lid; other site 266264014450 ABC transporter signature motif; other site 266264014451 Walker B; other site 266264014452 D-loop; other site 266264014453 H-loop/switch region; other site 266264014454 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 266264014455 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 266264014456 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 266264014457 active site; other site 266264014458 putative substrate binding pocket; other site 266264014459 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...; Region: metallo-dependent_hydrolases; cl00281 266264014460 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264014461 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 266264014462 substrate binding site; other site 266264014463 oxyanion hole (OAH) forming residues; other site 266264014464 trimer interface; other site 266264014465 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 266264014466 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 266264014467 dimer interface; other site 266264014468 NADP binding site; other site 266264014469 catalytic residues; other site 266264014470 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 266264014471 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 266264014472 inhibitor site; other site 266264014473 active site; other site 266264014474 dimer interface; other site 266264014475 catalytic residue; other site 266264014476 metabolite-proton symporter; Region: 2A0106; TIGR00883 266264014477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264014478 putative substrate translocation pore; other site 266264014479 Transcriptional regulators [Transcription]; Region: FadR; COG2186 266264014480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264014481 DNA-binding site; other site 266264014482 FCD domain; Region: FCD; cl11656 266264014483 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264014484 DNA-binding site; other site 266264014485 FCD domain; Region: FCD; cl11656 266264014486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264014487 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014488 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 266264014489 substrate binding pocket; other site 266264014490 dimerization interface; other site 266264014491 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 266264014492 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; cl12011 266264014493 catalytic Zn binding site; other site 266264014494 NAD(P) binding site; other site 266264014495 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 5,10-...; Region: DHFR; cl00161 266264014496 NADP+ binding site; other site 266264014497 folate binding site; other site 266264014498 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 266264014499 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 266264014500 active site; other site 266264014501 nucleotide binding site; other site 266264014502 HIGH motif; other site 266264014503 KMSKS motif; other site 266264014504 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...; Region: Nudix_Hydrolase; cl00447 266264014505 nudix motif; other site 266264014506 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 266264014507 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general,...; Region: PBEF_like; cd01569 266264014508 active site; other site 266264014509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264014510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014511 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 266264014512 putative dimerization interface; other site 266264014513 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264014514 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 266264014515 substrate binding site; other site 266264014516 oxyanion hole (OAH) forming residues; other site 266264014517 trimer interface; other site 266264014518 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...; Region: PBPb; cl11400 266264014519 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264014520 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 266264014521 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 266264014522 substrate binding site; other site 266264014523 oxyanion hole (OAH) forming residues; other site 266264014524 trimer interface; other site 266264014525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014526 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264014527 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264014528 thiolase; Provisional; Region: PRK06158 266264014529 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264014530 active site; other site 266264014531 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 266264014532 DUF35 OB-fold domain; Region: DUF35; pfam01796 266264014533 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...; Region: PBPb; cl11400 266264014534 glutamate dehydrogenase; Provisional; Region: PRK09414 266264014535 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 266264014536 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 266264014537 NAD(P) binding site; other site 266264014538 LysE type translocator; Region: LysE; cl00565 266264014539 Fimbrial protein; Region: Fimbrial; cl01416 266264014540 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...; Region: 4HBT; cd00586 266264014541 active site; other site 266264014542 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...; Region: gram_neg_porins; cd00342 266264014543 trimer interface; other site 266264014544 eyelet of channel; other site 266264014545 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...; Region: CAS_like; cl00184 266264014546 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 266264014547 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 266264014548 TOBE domain; Region: TOBE_2; cl01440 266264014549 TOBE domain; Region: TOBE_2; cl01440 266264014550 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 266264014551 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 266264014552 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 266264014553 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 266264014554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014555 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 266264014556 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 266264014557 Predicted kinase [General function prediction only]; Region: COG0645 266264014558 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 266264014559 Active site; other site 266264014560 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; cl11392 266264014561 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 266264014562 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 266264014563 GAF domain; Region: GAF; cl00853 266264014564 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...; Region: AAA; cd00009 266264014565 Walker A motif; other site 266264014566 ATP binding site; other site 266264014567 Walker B motif; other site 266264014568 arginine finger; other site 266264014569 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 266264014570 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 266264014571 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 266264014572 NAD(P) binding site; other site 266264014573 catalytic residues; other site 266264014574 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 266264014575 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 266264014576 ATP binding site; other site 266264014577 Mg2+ binding site; other site 266264014578 G-X-G motif; other site 266264014579 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264014580 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 266264014581 active site; other site 266264014582 phosphorylation site; other site 266264014583 intermolecular recognition site; other site 266264014584 dimerization interface; other site 266264014585 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...; Region: trans_reg_C; cd00383 266264014586 DNA binding site; other site 266264014587 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 266264014588 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...; Region: PBPb; cl11400 266264014589 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264014590 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 266264014591 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264014592 active site; other site 266264014593 acyl-CoA synthetase; Validated; Region: PRK06188 266264014594 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264014595 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 266264014596 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014597 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 266264014598 dimerization interface; other site 266264014599 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 266264014600 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 266264014601 FeS/SAM binding site; other site 266264014602 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 266264014603 Class III ribonucleotide reductase; Region: RNR_III; cd01675 266264014604 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 266264014605 effector binding site; other site 266264014606 active site; other site 266264014607 Zn binding site; other site 266264014608 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 266264014609 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264014610 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264014611 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264014612 active site; other site 266264014613 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 266264014614 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264014615 active site; other site 266264014616 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264014617 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264014618 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264014619 active site; other site 266264014620 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 266264014621 substrate binding site; other site 266264014622 oxyanion hole (OAH) forming residues; other site 266264014623 trimer interface; other site 266264014624 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 266264014625 putative active site; other site 266264014626 putative catalytic site; other site 266264014627 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...; Region: PBPb; cl11400 266264014628 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264014629 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...; Region: PBPb; cl11400 266264014630 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264014631 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 266264014632 substrate binding site; other site 266264014633 oxyanion hole (OAH) forming residues; other site 266264014634 trimer interface; other site 266264014635 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 266264014636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014637 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 266264014638 dimerization interface; other site 266264014639 substrate binding pocket; other site 266264014640 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264014641 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264014642 active site; other site 266264014643 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...; Region: PBPb; cl11400 266264014644 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 266264014645 substrate binding site; other site 266264014646 oxyanion hole (OAH) forming residues; other site 266264014647 trimer interface; other site 266264014648 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264014649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014650 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 266264014651 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 266264014652 dimer interface; other site 266264014653 active site; other site 266264014654 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014655 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264014656 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264014657 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 266264014658 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264014659 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 266264014660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014661 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 266264014662 putative substrate binding pocket; other site 266264014663 putative dimerization interface; other site 266264014664 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264014665 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 266264014666 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...; Region: PBPb; cl11400 266264014667 Uncharacterized conserved protein [Function unknown]; Region: COG5361 266264014668 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 266264014669 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 266264014670 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264014671 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 266264014672 active site; other site 266264014673 phosphorylation site; other site 266264014674 intermolecular recognition site; other site 266264014675 dimerization interface; other site 266264014676 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...; Region: LuxR_C_like; cd06170 266264014677 DNA binding residues; other site 266264014678 dimerization interface; other site 266264014679 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 266264014680 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 266264014681 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 266264014682 High potential iron-sulfur protein; Region: HIPIP; pfam01355 266264014683 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 266264014684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014685 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 266264014686 dimerization interface; other site 266264014687 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 266264014688 nudix motif; other site 266264014689 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 266264014690 DNA-binding site; other site 266264014691 RNA-binding motif; other site 266264014692 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 266264014693 rRNA binding site; other site 266264014694 predicted 30S ribosome binding site; other site 266264014695 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 266264014696 CoenzymeA binding site; other site 266264014697 subunit interaction site; other site 266264014698 PHB binding site; other site 266264014699 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 266264014700 active site clefts; other site 266264014701 zinc binding site; other site 266264014702 dimer interface; other site 266264014703 voltage-gated potassium channel; Provisional; Region: PRK10537 266264014704 Ion channel; Region: Ion_trans_2; cl11596 266264014705 kelch-like protein; Provisional; Region: PHA03098 266264014706 Kelch motif; Region: Kelch_1; cl02701 266264014707 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 266264014708 dimerization interface; other site 266264014709 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264014710 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...; Region: gram_neg_porins; cd00342 266264014711 trimer interface; other site 266264014712 eyelet of channel; other site 266264014713 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 266264014714 Amino acid permease; Region: AA_permease; pfam00324 266264014715 kynureninase; Region: kynureninase; TIGR01814 266264014716 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 266264014717 pyridoxal 5'-phosphate binding pocket; other site 266264014718 catalytic residue; other site 266264014719 Cupin domain; Region: Cupin_2; cl09118 266264014720 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 266264014721 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014722 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 266264014723 dimerization interface; other site 266264014724 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...; Region: gram_neg_porins; cd00342 266264014725 trimer interface; other site 266264014726 eyelet of channel; other site 266264014727 Cytochrome c; Region: Cytochrom_C; cl11414 266264014728 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 266264014729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014730 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264014731 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264014732 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 266264014733 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 266264014734 substrate binding pocket; other site 266264014735 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 266264014736 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 266264014737 inhibitor site; other site 266264014738 active site; other site 266264014739 dimer interface; other site 266264014740 catalytic residue; other site 266264014741 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 266264014742 homotrimer interaction site; other site 266264014743 putative active site; other site 266264014744 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 266264014745 putative FMN binding site; other site 266264014746 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...; Region: PBPb; cl11400 266264014747 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 266264014748 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 266264014749 NAD binding site; other site 266264014750 catalytic residues; other site 266264014751 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264014752 acetaldehyde dehydrogenase; Validated; Region: PRK08300 266264014753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014754 Prokaryotic acetaldehyde dehydrogenase, dimerization; Region: AcetDehyd-dimer; pfam09290 266264014755 4-hydroxy-2-ketovalerate aldolase; Validated; Region: PRK08195 266264014756 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 266264014757 active site; other site 266264014758 catalytic residues; other site 266264014759 metal binding site; other site 266264014760 DmpG-like communication domain; Region: DmpG_comm; pfam07836 266264014761 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 266264014762 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 266264014763 homotrimer interaction site; other site 266264014764 putative active site; other site 266264014765 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...; Region: metallo-dependent_hydrolases; cl00281 266264014766 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264014767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264014768 DNA-binding site; other site 266264014769 FCD domain; Region: FCD; cl11656 266264014770 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; cl00411 266264014771 Family of unknown function (DUF500); Region: DUF500; cl01109 266264014772 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264014773 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014774 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 266264014775 dimerization interface; other site 266264014776 substrate binding pocket; other site 266264014777 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...; Region: PBPb; cl11400 266264014778 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 266264014779 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264014780 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 266264014781 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 266264014782 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 266264014783 Uncharacterized conserved protein [Function unknown]; Region: COG5361 266264014784 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 266264014785 Uncharacterized conserved protein [Function unknown]; Region: COG5361 266264014786 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 266264014787 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 266264014788 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 266264014789 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 266264014790 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 266264014791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014792 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264014793 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 266264014794 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 266264014795 pyridoxal 5'-phosphate binding pocket; other site 266264014796 catalytic residue; other site 266264014797 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 266264014798 Predicted transcriptional regulators [Transcription]; Region: COG1510 266264014799 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 266264014800 dimerization interface; other site 266264014801 putative DNA binding site; other site 266264014802 putative Zn2+ binding site; other site 266264014803 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 266264014804 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 266264014805 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 266264014806 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 266264014807 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 266264014808 TPR motif; other site 266264014809 binding surface; other site 266264014810 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 266264014811 binding surface; other site 266264014812 TPR motif; other site 266264014813 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 266264014814 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 266264014815 TPR motif; other site 266264014816 binding surface; other site 266264014817 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 266264014818 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 266264014819 inhibitor-cofactor binding pocket; other site 266264014820 pyridoxal 5'-phosphate binding site; other site 266264014821 catalytic residue; other site 266264014822 WbqC-like protein family; Region: WbqC; pfam08889 266264014823 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 266264014824 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 266264014825 S-adenosylmethionine binding site; other site 266264014826 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 266264014827 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 266264014828 Macrocin-O-methyltransferase (TylF); Region: TylF; pfam05711 266264014829 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; cl12011 266264014830 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 266264014831 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264014832 putative substrate translocation pore; other site 266264014833 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264014834 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014835 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 266264014836 putative substrate binding pocket; other site 266264014837 putative dimerization interface; other site 266264014838 Protein of unknown function, DUF606; Region: DUF606; cl01273 266264014839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264014840 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014841 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 266264014842 dimerization interface; other site 266264014843 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...; Region: PBPb; cl11400 266264014844 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264014845 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264014846 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264014847 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...; Region: Sm_like; cl00259 266264014848 Sm1 motif; other site 266264014849 D3 - B interaction site; other site 266264014850 D1 - D2 interaction site; other site 266264014851 Hfq - Hfq interaction site; other site 266264014852 RNA binding pocket; other site 266264014853 Sm2 motif; other site 266264014854 flagellin; Validated; Region: PRK06819 266264014855 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 266264014856 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 266264014857 FlaG protein; Region: FlaG; cl00591 266264014858 flagellar capping protein; Reviewed; Region: fliD; PRK08032 266264014859 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 266264014860 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 266264014861 Flagellar protein FliS; Region: FliS; cl00654 266264014862 Flagellar protein FliT; Region: FliT; cl05125 266264014863 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 266264014864 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 266264014865 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 266264014866 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 266264014867 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 266264014868 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 266264014869 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 266264014870 FliG C-terminal domain; Region: FliG_C; pfam01706 266264014871 flagellar assembly protein H; Validated; Region: fliH; PRK05687 266264014872 Flagellar assembly protein FliH; Region: FliH; pfam02108 266264014873 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 266264014874 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 266264014875 Walker A motif/ATP binding site; other site 266264014876 Walker B motif; other site 266264014877 Flagellar FliJ protein; Region: FliJ; cl09161 266264014878 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 266264014879 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 266264014880 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264014881 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 266264014882 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 266264014883 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 266264014884 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; cl09110 266264014885 transmembrane helices; other site 266264014886 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264014887 Dehydratase family; Region: ILVD_EDD; cl00340 266264014888 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 266264014889 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 266264014890 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...; Region: PBPb; cl11400 266264014891 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 266264014892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014893 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 266264014894 putative active site; other site 266264014895 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 266264014896 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 266264014897 LysE type translocator; Region: LysE; cl00565 266264014898 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...; Region: PBPb; cl11400 266264014899 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 266264014900 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264014901 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 266264014902 putative dimerization interface; other site 266264014903 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 266264014904 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 266264014905 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 266264014906 Beta-lactamase; Region: Beta-lactamase; cl01009 266264014907 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 266264014908 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 266264014909 ATP binding site; other site 266264014910 Mg++ binding site; other site 266264014911 motif III; other site 266264014912 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 266264014913 nucleotide binding region; other site 266264014914 ATP-binding site; other site 266264014915 DbpA RNA binding domain; Region: DbpA; pfam03880 266264014916 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 266264014917 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 266264014918 NADP binding site; other site 266264014919 dimer interface; other site 266264014920 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 266264014921 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...; Region: PBPb; cl11400 266264014922 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...; Region: gram_neg_porins; cd00342 266264014923 eyelet of channel; other site 266264014924 trimer interface; other site 266264014925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014926 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 266264014927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264014928 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 266264014930 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl01276 266264014931 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...; Region: CAS_like; cl00184 266264014932 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 266264014933 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 266264014934 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...; Region: PBPb; cl11400 266264014935 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264014936 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 266264014937 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change...; Region: AcnB_Swivel; cd01576 266264014938 substrate binding site; other site 266264014939 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 266264014940 substrate binding site; other site 266264014941 ligand binding site; other site 266264014942 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 266264014943 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 266264014944 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 266264014945 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 266264014946 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 266264014947 FliP family; Region: FliP; cl00593 266264014948 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 266264014949 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 266264014950 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 266264014951 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 266264014952 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 266264014953 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264014954 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 266264014955 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264014956 NnrS protein; Region: NnrS; cl01258 266264014957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3809 266264014958 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 266264014959 substrate binding site; other site 266264014960 activation loop (A-loop); other site 266264014961 Predicted ATPase [General function prediction only]; Region: COG3899 266264014962 GAF domain; Region: GAF; cl00853 266264014963 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 266264014964 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 266264014965 ATP binding site; other site 266264014966 Mg2+ binding site; other site 266264014967 G-X-G motif; other site 266264014968 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 266264014969 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....; Region: LuxR_C_like; cd06170 266264014970 DNA binding residues; other site 266264014971 dimerization interface; other site 266264014972 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 266264014973 Isochorismatase family; Region: Isochorismatase; pfam00857 266264014974 catalytic triad; other site 266264014975 dimer interface; other site 266264014976 conserved cis-peptide bond; other site 266264014977 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 266264014978 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 266264014979 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 266264014980 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 266264014981 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 266264014982 active site; other site 266264014983 Bacterial protein of unknown function (DUF894); Region: DUF894; pfam05977 266264014984 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264014985 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 266264014986 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 266264014987 active site; other site 266264014988 phosphorylation site; other site 266264014989 intermolecular recognition site; other site 266264014990 dimerization interface; other site 266264014991 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 266264014992 active site; other site 266264014993 phosphorylation site; other site 266264014994 intermolecular recognition site; other site 266264014995 dimerization interface; other site 266264014996 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...; Region: LuxR_C_like; cd06170 266264014997 DNA binding residues; other site 266264014998 dimerization interface; other site 266264014999 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 266264015000 MMPL family; Region: MMPL; cl12044 266264015001 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264015002 NodT family; Region: outer_NodT; TIGR01845 266264015003 Outer membrane efflux protein; Region: OEP; pfam02321 266264015004 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 266264015005 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264015006 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 trans-...; Region: HisKA; cd00082 266264015007 dimer interface; other site 266264015008 phosphorylation site; other site 266264015009 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 266264015010 ATP binding site; other site 266264015011 Mg2+ binding site; other site 266264015012 G-X-G motif; other site 266264015013 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 266264015014 active site; other site 266264015015 phosphorylation site; other site 266264015016 intermolecular recognition site; other site 266264015017 dimerization interface; other site 266264015018 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...; Region: LuxR_C_like; cd06170 266264015019 DNA binding residues; other site 266264015020 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264015021 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 266264015022 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 266264015023 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 266264015024 active site; other site 266264015025 phosphorylation site; other site 266264015026 intermolecular recognition site; other site 266264015027 dimerization interface; other site 266264015028 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...; Region: trans_reg_C; cd00383 266264015029 DNA binding site; other site 266264015030 sensor protein QseC; Provisional; Region: PRK10337 266264015031 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 trans-...; Region: HisKA; cl00080 266264015032 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 266264015033 ATP binding site; other site 266264015034 Mg2+ binding site; other site 266264015035 G-X-G motif; other site 266264015036 NodT family; Region: outer_NodT; TIGR01845 266264015037 Outer membrane efflux protein; Region: OEP; pfam02321 266264015038 Outer membrane efflux protein; Region: OEP; pfam02321 266264015039 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 266264015040 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264015041 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264015042 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 266264015043 active site; other site 266264015044 phosphorylation site; other site 266264015045 intermolecular recognition site; other site 266264015046 dimerization interface; other site 266264015047 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...; Region: trans_reg_C; cd00383 266264015048 DNA binding site; other site 266264015049 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264015050 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 trans-...; Region: HisKA; cd00082 266264015051 dimer interface; other site 266264015052 phosphorylation site; other site 266264015053 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 266264015054 ATP binding site; other site 266264015055 Mg2+ binding site; other site 266264015056 G-X-G motif; other site 266264015057 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 266264015058 MgtC family; Region: MgtC; pfam02308 266264015059 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264015060 Adenosine specific kinase; Region: Adenosine_kin; cl00796 266264015061 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 266264015062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 266264015063 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 266264015064 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 266264015065 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 266264015066 Surface antigen; Region: Bac_surface_Ag; cl03097 266264015067 haemagglutination activity domain; Region: Haemagg_act; cl05436 266264015068 Bestrophin; Region: Bestrophin; cl01544 266264015069 Cytochrome c [Energy production and conversion]; Region: COG3258 266264015070 Cytochrome c; Region: Cytochrom_C; cl11414 266264015071 Sulfite exporter TauE/SafE; Region: TauE; cl00498 266264015072 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 266264015073 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...; Region: AAA; cd00009 266264015074 Walker A motif; other site 266264015075 ATP binding site; other site 266264015076 Walker B motif; other site 266264015077 arginine finger; other site 266264015078 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264015079 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 266264015080 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015081 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264015082 putative substrate translocation pore; other site 266264015083 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 266264015084 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 266264015085 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 266264015086 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 266264015087 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...; Region: PBPb; cl11400 266264015088 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264015089 active site; other site 266264015090 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264015091 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264015092 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 266264015093 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...; Region: PBPb; cl11400 266264015094 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264015095 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015096 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 266264015097 substrate binding pocket; other site 266264015098 dimerization interface; other site 266264015099 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264015100 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 266264015101 substrate binding site; other site 266264015102 oxyanion hole (OAH) forming residues; other site 266264015103 trimer interface; other site 266264015104 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264015105 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 266264015106 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 266264015107 FMN binding site; other site 266264015108 active site; other site 266264015109 substrate binding site; other site 266264015110 catalytic residue; other site 266264015111 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...; Region: Aldo_ket_red; cd06660 266264015112 active site; other site 266264015113 catalytic tetrad; other site 266264015114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264015115 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015116 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 266264015117 putative effector binding pocket; other site 266264015118 dimerization interface; other site 266264015119 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 266264015120 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015121 putative substrate translocation pore; other site 266264015122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015123 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 266264015124 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 266264015125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264015126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015127 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 266264015128 putative dimerization interface; other site 266264015129 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...; Region: PBPb; cl11400 266264015130 Catalase (peroxidase I) [Inorganic ion transport and metabolism]; Region: KatG; COG0376 266264015131 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 266264015132 dimer interface; other site 266264015133 active site; other site 266264015134 heme binding site; other site 266264015135 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 266264015136 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 266264015137 putative deacylase active site; other site 266264015138 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 266264015139 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 266264015140 N-terminal plug; other site 266264015141 ligand-binding site; other site 266264015142 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 266264015143 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 266264015144 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 266264015145 ChuX-like family; Region: DUF1008; cl01509 266264015146 ChuX-like family; Region: DUF1008; cl01509 266264015147 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 266264015148 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 266264015149 putative hemin binding site; other site 266264015150 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...; Region: TM_ABC_iron-siderophores_like; cd06550 266264015151 ABC-ATPase subunit interface; other site 266264015152 dimer interface; other site 266264015153 putative PBP binding regions; other site 266264015154 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 266264015155 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 266264015156 Walker A/P-loop; other site 266264015157 ATP binding site; other site 266264015158 Q-loop/lid; other site 266264015159 ABC transporter signature motif; other site 266264015160 Walker B; other site 266264015161 D-loop; other site 266264015162 H-loop/switch region; other site 266264015163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015164 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264015165 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA)...; Region: CCL_ACL-C; cd06100 266264015166 active site; other site 266264015167 oxalacetate binding site; other site 266264015168 citrylCoA binding site; other site 266264015169 coenzyme A binding site; other site 266264015170 catalytic triad; other site 266264015171 acyl-CoA synthetase; Validated; Region: PRK06188 266264015172 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264015173 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...; Region: PBPb; cl11400 266264015174 Transcriptional regulator [Transcription]; Region: IclR; COG1414 266264015175 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015176 Bacterial transcriptional regulator; Region: IclR; pfam01614 266264015177 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 266264015178 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 266264015179 ApbE family; Region: ApbE; cl00643 266264015180 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 266264015181 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264015182 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 266264015183 FAD binding pocket; other site 266264015184 FAD binding motif; other site 266264015185 catalytic residues; other site 266264015186 NAD binding pocket; other site 266264015187 phosphate binding motif; other site 266264015188 beta-alpha-beta structure motif; other site 266264015189 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl01469 266264015190 Uncharacterized conserved protein [Function unknown]; Region: COG5591 266264015191 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 266264015192 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 266264015193 active site; other site 266264015194 phosphorylation site; other site 266264015195 intermolecular recognition site; other site 266264015196 dimerization interface; other site 266264015197 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...; Region: trans_reg_C; cd00383 266264015198 DNA binding site; other site 266264015199 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264015200 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 trans-...; Region: HisKA; cd00082 266264015201 dimer interface; other site 266264015202 phosphorylation site; other site 266264015203 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 266264015204 ATP binding site; other site 266264015205 Mg2+ binding site; other site 266264015206 G-X-G motif; other site 266264015207 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264015208 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 266264015209 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 266264015210 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 266264015211 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 266264015212 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 266264015213 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; cl11391 266264015214 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 266264015215 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 266264015216 Putative phospholipid-binding domain; Region: BON; cl02771 266264015217 Domain of unknown function (DUF305); Region: DUF305; pfam03713 266264015218 Uncharacterized conserved protein [Function unknown]; Region: COG3391 266264015219 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 266264015220 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 266264015221 RNA polymerase sigma factor; Provisional; Region: PRK12511 266264015222 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...; Region: Sigma70_r4; cd06171 266264015223 DNA binding residues; other site 266264015224 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 266264015225 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 266264015226 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264015227 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 266264015228 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 266264015229 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015230 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015231 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015232 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015233 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015234 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015235 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015236 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015237 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015238 VCBS repeat; Region: VCBS_repeat; TIGR01965 266264015239 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 266264015240 Outer membrane efflux protein; Region: OEP; pfam02321 266264015241 Outer membrane efflux protein; Region: OEP; pfam02321 266264015242 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264015243 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,...; Region: Biotinyl_lipoyl_domains; cl11404 266264015244 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264015245 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 266264015246 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 266264015247 active site; other site 266264015248 putative substrate binding region; other site 266264015249 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 266264015250 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264015251 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264015252 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 266264015253 NAD(P) binding site; other site 266264015254 catalytic residues; other site 266264015255 choline dehydrogenase; Validated; Region: PRK02106 266264015256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015257 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 266264015258 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 266264015259 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 266264015260 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264015261 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 266264015262 Sulfatase; Region: Sulfatase; cl10460 266264015263 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 266264015264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015265 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 266264015266 dimerization interface; other site 266264015267 metabolite-proton symporter; Region: 2A0106; TIGR00883 266264015268 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015269 putative substrate translocation pore; other site 266264015270 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 266264015271 Peptidase dimerization domain; Region: M20_dimer; cl09126 266264015272 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...; Region: PBPb; cl11400 266264015273 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 266264015274 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 266264015275 Sulfatase; Region: Sulfatase; cl10460 266264015276 Sulfatase; Region: Sulfatase; cl10460 266264015277 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264015278 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015279 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 266264015280 dimerization interface; other site 266264015281 substrate binding pocket; other site 266264015282 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264015283 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264015284 active site; other site 266264015285 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 266264015286 putative acyl-acceptor binding pocket; other site 266264015287 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264015288 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 266264015289 substrate binding site; other site 266264015290 oxyanion hole (OAH) forming residues; other site 266264015291 trimer interface; other site 266264015292 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 266264015293 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 266264015294 dimer interface; other site 266264015295 active site; other site 266264015296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015297 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 266264015298 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...; Region: NPD_like; cd04730 266264015299 FMN binding site; other site 266264015300 substrate binding site; other site 266264015301 putative catalytic residue; other site 266264015302 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264015303 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 266264015304 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...; Region: LuxR_C_like; cd06170 266264015305 DNA binding residues; other site 266264015306 dimerization interface; other site 266264015307 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264015308 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264015309 active site; other site 266264015310 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 266264015311 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264015312 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264015313 putative acyl-CoA synthetase; Provisional; Region: PRK06018 266264015314 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...; Region: 4HBT; cd00586 266264015315 active site; other site 266264015316 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 266264015317 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 266264015318 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 266264015319 FAD binding domain; Region: FAD_binding_4; cl10516 266264015320 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 266264015321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015322 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 266264015323 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 266264015324 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 266264015325 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015326 putative substrate translocation pore; other site 266264015327 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 266264015328 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 266264015329 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 266264015330 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; cl01578 266264015331 putative transposase OrfB; Reviewed; Region: PHA02517 266264015332 Integrase core domain; Region: rve; cl01316 266264015333 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; cl01116 266264015334 putative transposase OrfB; Reviewed; Region: PHA02517 266264015335 Integrase core domain; Region: rve; cl01316 266264015336 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; cl01116 266264015337 TnsA endonuclease N terminal; Region: TnsA_N; cl07370 266264015340 Uncharacterized conserved protein [Function unknown]; Region: COG4127 266264015341 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 266264015342 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 266264015343 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264015344 DNA-binding site; other site 266264015345 UTRA domain; Region: UTRA; cl06649 266264015346 Fumarase C-terminus; Region: Fumerase_C; cl00795 266264015347 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 266264015348 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved...; Region: MR_like_1; cd03326 266264015349 putative active site pocket; other site 266264015350 metal binding site; other site 266264015351 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...; Region: PBPb; cl11400 266264015352 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 266264015353 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264015354 Integrase core domain; Region: rve; cl01316 266264015355 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 266264015356 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 266264015357 UvrD/REP helicase; Region: UvrD-helicase; cl14126 266264015359 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 266264015360 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264015361 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264015362 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 266264015363 putative active site; other site 266264015364 putative metal-binding site; other site 266264015365 Fusaric acid resistance protein family; Region: FUSC; pfam04632 266264015366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015367 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 266264015368 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...; Region: PBPb; cl11400 266264015369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015370 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 266264015371 NIPSNAP; Region: NIPSNAP; pfam07978 266264015372 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...; Region: PBPb; cl11400 266264015373 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; cl01116 266264015374 putative transposase OrfB; Reviewed; Region: PHA02517 266264015375 Integrase core domain; Region: rve; cl01316 266264015376 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 266264015377 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264015378 active site; other site 266264015379 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 266264015380 DUF35 OB-fold domain; Region: DUF35; pfam01796 266264015381 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264015382 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 266264015383 substrate binding site; other site 266264015384 oxyanion hole (OAH) forming residues; other site 266264015385 trimer interface; other site 266264015386 short chain dehydrogenase; Provisional; Region: PRK08278 266264015387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015388 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...; Region: PBPb; cl11400 266264015389 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...; Region: gram_neg_porins; cd00342 266264015390 trimer interface; other site 266264015391 eyelet of channel; other site 266264015392 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264015393 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 266264015394 substrate binding site; other site 266264015395 oxyanion hole (OAH) forming residues; other site 266264015396 trimer interface; other site 266264015397 Cupin domain; Region: Cupin_2; cl09118 266264015398 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264015399 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 266264015400 active site; other site 266264015401 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 266264015402 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264015403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015404 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 266264015405 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 266264015406 dimer interface; other site 266264015407 active site; other site 266264015408 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 266264015409 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 266264015410 substrate binding site; other site 266264015411 oxyanion hole (OAH) forming residues; other site 266264015412 trimer interface; other site 266264015413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015414 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 266264015415 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264015416 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 266264015417 substrate binding site; other site 266264015418 oxyanion hole (OAH) forming residues; other site 266264015419 trimer interface; other site 266264015420 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264015421 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264015423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015424 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264015425 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 266264015426 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 266264015427 NAD(P) binding site; other site 266264015428 catalytic residues; other site 266264015429 Cytochrome P450; Region: p450; cl12078 266264015430 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 266264015431 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...; Region: PDR_like; cd06185 266264015432 FMN-binding pocket; other site 266264015433 flavin binding motif; other site 266264015434 phosphate binding motif; other site 266264015435 beta-alpha-beta structure motif; other site 266264015436 NAD binding pocket; other site 266264015437 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 266264015438 catalytic loop; other site 266264015439 iron binding site; other site 266264015440 etfA (electron transfer flavoprotein alpha subunit); Provisional; Region: PLN00022 266264015441 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 266264015442 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 266264015443 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 266264015444 Ligand binding site; other site 266264015445 enoyl-CoA hydratase; Region: PLN02864 266264015446 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 266264015447 dimer interaction site; other site 266264015448 substrate-binding tunnel; other site 266264015449 active site; other site 266264015450 catalytic site; other site 266264015451 substrate binding site; other site 266264015452 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264015453 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 266264015454 substrate binding site; other site 266264015455 oxyanion hole (OAH) forming residues; other site 266264015456 trimer interface; other site 266264015457 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 266264015458 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 266264015459 putative active site; other site 266264015460 putative substrate binding site; other site 266264015461 ATP binding site; other site 266264015462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015463 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264015464 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264015465 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 266264015466 putative active site; other site 266264015467 putative substrate binding site; other site 266264015468 ATP binding site; other site 266264015469 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 266264015470 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264015471 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 266264015472 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264015473 active site; other site 266264015474 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 266264015475 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 266264015476 FAD binding site; other site 266264015477 substrate binding site; other site 266264015478 catalytic base; other site 266264015479 Transcriptional regulators [Transcription]; Region: FadR; COG2186 266264015480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264015481 DNA-binding site; other site 266264015482 FCD domain; Region: FCD; cl11656 266264015483 Transcriptional regulators [Transcription]; Region: FadR; COG2186 266264015484 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264015485 DNA-binding site; other site 266264015486 FCD domain; Region: FCD; cl11656 266264015487 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a...; Region: Nitroreductase; cd02136 266264015488 putative FMN binding site; other site 266264015489 putative enoyl-(acyl-carrier-protein) reductase II; Region: enACPred_II; TIGR03151 266264015490 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...; Region: NPD_like; cd04730 266264015491 FMN binding site; other site 266264015492 substrate binding site; other site 266264015493 putative catalytic residue; other site 266264015494 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264015495 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 266264015496 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 266264015497 active site 2; other site 266264015498 active site 1; other site 266264015499 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 266264015500 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 266264015501 active site; other site 266264015502 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 266264015503 DUF35 OB-fold domain; Region: DUF35; pfam01796 266264015504 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl...; Region: SCP-x_thiolase; cd00829 266264015505 active site; other site 266264015506 putative transposase OrfB; Reviewed; Region: PHA02517 266264015507 Integrase core domain; Region: rve; cl01316 266264015508 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264015509 aldehyde dehydrogenase (NAD+); Region: PLN02466 266264015510 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 266264015511 NAD(P) binding site; other site 266264015512 catalytic residues; other site 266264015513 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 266264015514 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 266264015515 putative NAD(P) binding site; other site 266264015516 catalytic Zn binding site; other site 266264015517 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)...; Region: Rieske; cl00938 266264015518 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 266264015519 iron-sulfur cluster; other site 266264015520 [2Fe-2S] cluster binding site; other site 266264015521 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264015522 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...; Region: LuxR_C_like; cd06170 266264015523 DNA binding residues; other site 266264015524 dimerization interface; other site 266264015525 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3,4...; Region: Rieske_RO_Alpha_PhDO_like; cd03479 266264015526 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 266264015527 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...; Region: PDR_like; cd06185 266264015528 FMN-binding pocket; other site 266264015529 flavin binding motif; other site 266264015530 phosphate binding motif; other site 266264015531 beta-alpha-beta structure motif; other site 266264015532 NAD binding pocket; other site 266264015533 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 266264015534 catalytic loop; other site 266264015535 iron binding site; other site 266264015536 Transcriptional regulators [Transcription]; Region: FadR; COG2186 266264015537 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264015538 DNA-binding site; other site 266264015539 FCD domain; Region: FCD; cl11656 266264015540 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...; Region: PBPb; cl11400 266264015541 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264015542 lipid-transfer protein; Provisional; Region: PRK07855 266264015543 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-.; Region: SCP-x_thiolase; cd00829 266264015544 active site; other site 266264015545 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 266264015546 DUF35 OB-fold domain; Region: DUF35; pfam01796 266264015547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015548 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 266264015549 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264015550 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264015551 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 266264015552 substrate binding site; other site 266264015553 oxyanion hole (OAH) forming residues; other site 266264015554 trimer interface; other site 266264015555 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 higher-...; Region: HU_IHF; cl00257 266264015559 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264015560 H-NS histone family; Region: Histone_HNS; pfam00816 266264015561 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 266264015562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 266264015563 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 266264015564 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 266264015565 putative DNA binding site; other site 266264015566 dimerization interface; other site 266264015567 putative Zn2+ binding site; other site 266264015568 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264015569 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015570 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 266264015571 putative effector binding pocket; other site 266264015572 dimerization interface; other site 266264015573 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 266264015574 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264015575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015576 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 266264015577 dimerization interface; other site 266264015578 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...; Region: PBPb; cl11400 266264015579 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 266264015580 pyridoxal 5'-phosphate binding site; other site 266264015581 homodimer interface; other site 266264015582 catalytic residue; other site 266264015583 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 266264015584 Uncharacterized conserved protein [Function unknown]; Region: COG5591 266264015585 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 266264015586 Riboswitch candidate 266264015587 Riboswitch candidate 266264015588 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 266264015589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015590 PAS fold; Region: PAS_4; pfam08448 266264015591 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264015592 metal binding site; other site 266264015593 active site; other site 266264015594 I-site; other site 266264015595 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015596 putative substrate translocation pore; other site 266264015597 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264015598 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 266264015599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015600 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 266264015601 dimerization interface; other site 266264015602 substrate binding pocket; other site 266264015603 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264015604 Active site; other site 266264015605 signature motif; other site 266264015606 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 266264015607 Active site; other site 266264015608 signature motif; other site 266264015609 Mechanosensitive ion channel; Region: MS_channel; pfam00924 266264015610 NodT family; Region: outer_NodT; TIGR01845 266264015611 Outer membrane efflux protein; Region: OEP; pfam02321 266264015612 Outer membrane efflux protein; Region: OEP; pfam02321 266264015613 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 266264015614 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015615 putative substrate translocation pore; other site 266264015616 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015617 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 266264015618 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 266264015619 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264015620 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 266264015621 MltA-interacting protein MipA; Region: MipA; cl01504 266264015622 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 266264015623 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 266264015624 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 266264015625 tetramer interface; other site 266264015626 heme binding pocket; other site 266264015627 NADPH binding site; other site 266264015628 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 266264015629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264015630 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 266264015631 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 266264015632 tetramer interface; other site 266264015633 serine racemase; Region: PLN02970 266264015634 pyridoxal 5'-phosphate binding site; other site 266264015635 catalytic residue; other site 266264015636 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 266264015637 putative active site; other site 266264015638 heme pocket; other site 266264015639 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264015640 metal binding site; other site 266264015641 active site; other site 266264015642 I-site; other site 266264015643 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 266264015644 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 266264015645 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 266264015646 active site clefts; other site 266264015647 zinc binding site; other site 266264015648 dimer interface; other site 266264015649 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015650 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 266264015651 dimerization interface; other site 266264015652 metabolite-proton symporter; Region: 2A0106; TIGR00883 266264015653 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015654 putative substrate translocation pore; other site 266264015655 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 266264015656 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 266264015657 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 266264015658 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 266264015659 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 266264015660 D-pathway; other site 266264015661 Putative ubiquinol binding site; other site 266264015662 Low-spin heme (heme b) binding site; other site 266264015663 Putative water exit pathway; other site 266264015664 Binuclear center (heme o3/CuB); other site 266264015665 K-pathway; other site 266264015666 Putative proton exit pathway; other site 266264015667 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 266264015668 Subunit I/III interface; other site 266264015669 Subunit III/IV interface; other site 266264015670 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 266264015671 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 266264015672 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264015673 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 266264015674 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264015675 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015676 Major Facilitator Superfamily; Region: MFS_1; pfam07690 266264015677 putative substrate translocation pore; other site 266264015678 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 266264015679 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...; Region: PBPb; cl11400 266264015680 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 266264015681 active site lid residues; other site 266264015682 substrate binding pocket; other site 266264015683 catalytic residues; other site 266264015684 substrate-Mg2+ binding site; other site 266264015685 aspartate-rich region 1; other site 266264015686 aspartate-rich region 2; other site 266264015687 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 266264015688 active site; other site 266264015689 Sulfite exporter TauE/SafE; Region: TauE; cl00498 266264015690 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 266264015691 Haemolysin-III related; Region: HlyIII; cl03831 266264015692 CoA-transferase family III; Region: CoA_transf_3; cl00778 266264015693 enoyl-CoA hydratase; Provisional; Region: PRK06142 266264015694 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 266264015695 substrate binding site; other site 266264015696 oxyanion hole (OAH) forming residues; other site 266264015697 trimer interface; other site 266264015698 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 266264015699 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...; Region: PBPb; cl11400 266264015700 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine...; Region: AGAT_like; cd06451 266264015701 homodimer interface; other site 266264015702 pyridoxal 5'-phosphate binding site; other site 266264015703 catalytic residue; other site 266264015704 Transcriptional regulators [Transcription]; Region: GntR; COG1802 266264015705 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264015706 DNA-binding site; other site 266264015707 FCD domain; Region: FCD; cl11656 266264015708 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 266264015709 FAD binding domain; Region: FAD_binding_4; cl10516 266264015710 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 266264015711 hypothetical protein; Provisional; Region: PRK11689 266264015714 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 266264015715 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 four-...; Region: Ntn_hydrolase; cl00467 266264015716 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 7-...; Region: Ntn_PGA_like; cd03747 266264015717 active site; other site 266264015718 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 four-...; Region: Ntn_hydrolase; cl00467 266264015719 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 266264015720 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 266264015721 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cl06868 266264015722 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_like1; cd06200 266264015723 FAD binding pocket; other site 266264015724 FAD binding motif; other site 266264015725 catalytic residues; other site 266264015726 NAD binding pocket; other site 266264015727 phosphate binding motif; other site 266264015728 beta-alpha-beta structure motif; other site 266264015729 ApbE family; Region: ApbE; cl00643 266264015730 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 266264015731 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 266264015732 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl01469 266264015733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 266264015734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 266264015735 Cache domain; Region: Cache_2; pfam08269 266264015736 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 266264015737 flagellar capping protein; Reviewed; Region: fliD; PRK08032 266264015738 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 266264015739 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 266264015740 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 266264015741 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 266264015742 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 266264015743 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 266264015744 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 266264015745 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 266264015746 tetramer interface; other site 266264015747 catalytic Zn binding site; other site 266264015748 NADP binding site; other site 266264015749 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...; Region: LuxR_C_like; cd06170 266264015750 DNA binding residues; other site 266264015751 dimerization interface; other site 266264015752 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 266264015753 Ligand Binding Site; other site 266264015754 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 266264015755 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015756 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 266264015757 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 266264015758 Tripartite tricarboxylate transporter TctB family; Region: DUF1468; pfam07331 266264015759 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 266264015760 putative chaperone; Provisional; Region: PRK11678 266264015761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264015762 metal binding site; other site 266264015763 active site; other site 266264015764 I-site; other site 266264015765 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 266264015766 catalytic triad; other site 266264015767 conserved cis-peptide bond; other site 266264015768 FOG: CBS domain [General function prediction only]; Region: COG0517 266264015769 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 266264015770 FOG: CBS domain [General function prediction only]; Region: COG0517 266264015771 FOG: CBS domain [General function prediction only]; Region: COG0517 266264015772 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 266264015773 PAS domain S-box; Region: sensory_box; TIGR00229 266264015774 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 266264015775 putative active site; other site 266264015776 heme pocket; other site 266264015777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264015778 metal binding site; other site 266264015779 active site; other site 266264015780 I-site; other site 266264015781 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 266264015782 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 266264015783 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 266264015784 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 266264015785 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264015786 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015787 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 266264015788 dimerization interface; other site 266264015789 Copper resistance protein D; Region: CopD; cl00563 266264015790 Copper resistance protein CopC; Region: CopC; cl01012 266264015791 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 266264015792 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 266264015793 Multicopper oxidase; Region: Cu-oxidase; cl11412 266264015794 Multicopper oxidase; Region: Cu-oxidase; cl11412 266264015795 Multicopper oxidase; Region: Cu-oxidase; cl11412 266264015796 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 266264015797 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 266264015798 active site; other site 266264015799 phosphorylation site; other site 266264015800 intermolecular recognition site; other site 266264015801 dimerization interface; other site 266264015802 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...; Region: trans_reg_C; cd00383 266264015803 DNA binding site; other site 266264015804 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 266264015805 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264015806 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 trans-...; Region: HisKA; cd00082 266264015807 dimer interface; other site 266264015808 phosphorylation site; other site 266264015809 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 266264015810 ATP binding site; other site 266264015811 Mg2+ binding site; other site 266264015812 G-X-G motif; other site 266264015813 YeeE/YedE family (DUF395); Region: DUF395; cl01018 266264015814 YeeE/YedE family (DUF395); Region: DUF395; cl01018 266264015815 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 266264015816 dimerization interface; other site 266264015817 putative DNA binding site; other site 266264015818 putative Zn2+ binding site; other site 266264015819 putative transposase OrfB; Reviewed; Region: PHA02517 266264015820 Integrase core domain; Region: rve; cl01316 266264015821 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; cl01116 266264015822 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 266264015823 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 266264015824 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 266264015825 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 266264015826 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 266264015827 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 266264015828 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 266264015829 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 266264015830 Protein of unknown function (DUF465); Region: DUF465; cl01070 266264015831 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 266264015832 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264015833 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...; Region: trans_reg_C; cd00383 266264015834 DNA binding site; other site 266264015835 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...; Region: MIP; cd00333 266264015836 amphipathic channel; other site 266264015837 Asn-Pro-Ala signature motifs; other site 266264015838 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 266264015839 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 266264015840 active site; other site 266264015841 phosphorylation site; other site 266264015842 intermolecular recognition site; other site 266264015843 dimerization interface; other site 266264015844 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...; Region: trans_reg_C; cd00383 266264015845 DNA binding site; other site 266264015846 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 266264015847 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...; Region: PBPb; cd00134 266264015848 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 266264015849 substrate binding pocket; other site 266264015850 membrane-bound complex binding site; other site 266264015851 hinge residues; other site 266264015852 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...; Region: PBPb; cd00134 266264015853 substrate binding pocket; other site 266264015854 membrane-bound complex binding site; other site 266264015855 hinge residues; other site 266264015856 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 266264015857 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 266264015858 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 trans-...; Region: HisKA; cd00082 266264015859 dimer interface; other site 266264015860 phosphorylation site; other site 266264015861 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 266264015862 ATP binding site; other site 266264015863 Mg2+ binding site; other site 266264015864 G-X-G motif; other site 266264015865 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 266264015866 active site; other site 266264015867 phosphorylation site; other site 266264015868 intermolecular recognition site; other site 266264015869 dimerization interface; other site 266264015870 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 266264015871 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 266264015872 binding surface; other site 266264015873 TPR motif; other site 266264015874 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 266264015875 binding surface; other site 266264015876 TPR motif; other site 266264015877 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 266264015878 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 266264015879 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 266264015880 active site; other site 266264015881 phosphorylation site; other site 266264015882 intermolecular recognition site; other site 266264015883 dimerization interface; other site 266264015884 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...; Region: LuxR_C_like; cd06170 266264015885 DNA binding residues; other site 266264015886 dimerization interface; other site 266264015887 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264015888 Integrase core domain; Region: rve; cl01316 266264015889 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...; Region: gram_neg_porins; cd00342 266264015890 trimer interface; other site 266264015891 eyelet of channel; other site 266264015892 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 266264015893 PAS fold; Region: PAS; pfam00989 266264015894 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 266264015895 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 trans-...; Region: HisKA; cd00082 266264015896 dimer interface; other site 266264015897 phosphorylation site; other site 266264015898 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 266264015899 ATP binding site; other site 266264015900 Mg2+ binding site; other site 266264015901 G-X-G motif; other site 266264015902 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 266264015903 active site; other site 266264015904 phosphorylation site; other site 266264015905 intermolecular recognition site; other site 266264015906 dimerization interface; other site 266264015907 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 266264015908 putative trimer interface; other site 266264015909 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 266264015910 trimer interface; other site 266264015911 active site; other site 266264015912 substrate binding site; other site 266264015913 CoA binding site; other site 266264015914 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 266264015915 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 266264015916 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 266264015917 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 266264015918 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: GCD2; COG1184 266264015919 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 266264015920 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 266264015921 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...; Region: ABC_KpsT_Wzt; cd03220 266264015922 Walker A/P-loop; other site 266264015923 ATP binding site; other site 266264015924 Q-loop/lid; other site 266264015925 ABC transporter signature motif; other site 266264015926 Walker B; other site 266264015927 D-loop; other site 266264015928 H-loop/switch region; other site 266264015929 ABC-2 type transporter; Region: ABC2_membrane; cl11417 266264015930 NeuB family; Region: NeuB; cl00496 266264015931 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 266264015932 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 266264015933 Ligand binding site; other site 266264015934 oligomer interface; other site 266264015935 KpsF/GutQ family protein; Region: kpsF; TIGR00393 266264015936 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 5...; Region: SIS_Kpsf; cd05014 266264015937 putative active site; other site 266264015938 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 266264015939 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 266264015940 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 266264015941 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 266264015942 active site; other site 266264015943 catalytic triad; other site 266264015944 Uncharacterized conserved protein [Function unknown]; Region: COG2128 266264015945 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 266264015946 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264015947 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264015948 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 266264015949 metal binding site 2; other site 266264015950 putative DNA binding helix; other site 266264015951 metal binding site 1; other site 266264015952 dimer interface; other site 266264015953 structural Zn2+ binding site; other site 266264015954 EamA-like transporter family; Region: EamA; cl01037 266264015955 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 266264015956 EamA-like transporter family; Region: EamA; cl01037 266264015957 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015958 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264015959 metal binding site; other site 266264015960 active site; other site 266264015961 I-site; other site 266264015962 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 266264015963 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 connected by an extended linker. The...; Region: HAMP; cl01054 266264015964 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 266264015965 PAS fold; Region: PAS_4; pfam08448 266264015966 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 266264015967 metal binding site; other site 266264015968 active site; other site 266264015969 I-site; other site 266264015970 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 266264015971 dimerization interface; other site 266264015972 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 266264015973 Integrase core domain; Region: rve; cl01316 266264015974 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...; Region: gram_neg_porins; cd00342 266264015975 trimer interface; other site 266264015976 eyelet of channel; other site 266264015977 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264015978 metabolite-proton symporter; Region: 2A0106; TIGR00883 266264015979 putative substrate translocation pore; other site 266264015980 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_6; cd06233 266264015981 putative active site; other site 266264015982 Zn-binding site; other site 266264015983 Peptidase C26; Region: Peptidase_C26; pfam07722 266264015984 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 266264015985 catalytic triad; other site 266264015986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 266264015987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015988 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 266264015989 dimerization interface; other site 266264015990 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 266264015991 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 266264015992 ligand binding site; other site 266264015993 flexible hinge region; other site 266264015994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264015995 acyl-CoA synthetase; Validated; Region: PRK08162 266264015996 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 266264015997 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 266264015998 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 266264015999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264016000 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 266264016001 enoyl-CoA hydratase; Provisional; Region: PRK05980 266264016002 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 266264016003 substrate binding site; other site 266264016004 oxyanion hole (OAH) forming residues; other site 266264016005 trimer interface; other site 266264016006 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; cl11392 266264016007 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 266264016008 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; cl11391 266264016009 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 266264016010 Cupin domain; Region: Cupin_2; cl09118 266264016011 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...; Region: gram_neg_porins; cd00342 266264016012 trimer interface; other site 266264016013 eyelet of channel; other site 266264016014 CCC1-related family of proteins; Region: CCC1_like; cl00278 266264016015 Protein of unknown function, DUF485; Region: DUF485; cl01231 266264016016 Sodium:solute symporter family; Region: SSF; cl00456 266264016017 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 266264016018 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 266264016019 Beta-lactamase; Region: Beta-lactamase; cl01009 266264016020 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 266264016021 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 266264016022 catalytic residues; other site 266264016023 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 266264016024 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 266264016025 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 266264016026 Subunit I/III interface; other site 266264016027 Subunit III/IV interface; other site 266264016028 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 266264016029 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 266264016030 D-pathway; other site 266264016031 Putative ubiquinol binding site; other site 266264016032 Low-spin heme (heme b) binding site; other site 266264016033 Putative water exit pathway; other site 266264016034 Binuclear center (heme o3/CuB); other site 266264016035 K-pathway; other site 266264016036 Putative proton exit pathway; other site 266264016037 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 266264016038 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 266264016039 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 266264016040 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 266264016041 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 266264016042 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 266264016043 pyridoxal 5'-phosphate binding site; other site 266264016044 homodimer interface; other site 266264016045 catalytic residue; other site 266264016046 Predicted membrane protein [Function unknown]; Region: COG1297; cl14607 266264016047 Predicted membrane protein [Function unknown]; Region: COG1297; cl14607 266264016048 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 266264016049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 266264016050 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 266264016051 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 trans-...; Region: HisKA; cl00080 266264016052 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 266264016053 ATP binding site; other site 266264016054 Mg2+ binding site; other site 266264016055 G-X-G motif; other site 266264016056 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 266264016057 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 266264016058 active site; other site 266264016059 phosphorylation site; other site 266264016060 intermolecular recognition site; other site 266264016061 dimerization interface; other site 266264016062 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...; Region: trans_reg_C; cd00383 266264016063 DNA binding site; other site 266264016064 ROK family; Region: ROK; cl09121 266264016065 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 266264016066 putative active site; other site 266264016067 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 266264016068 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 266264016069 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 266264016070 Dehydratase family; Region: ILVD_EDD; cl00340 266264016071 6-phosphogluconate dehydratase; Region: edd; TIGR01196 266264016072 mechanosensitive channel MscS; Provisional; Region: PRK10334 266264016073 Conserved TM helix; Region: TM_helix; pfam05552 266264016074 Mechanosensitive ion channel; Region: MS_channel; pfam00924 266264016075 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 266264016076 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 266264016077 H+ Antiporter protein; Region: 2A0121; TIGR00900 266264016078 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 266264016079 putative substrate translocation pore; other site 266264016080 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 266264016081 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 266264016082 N-terminal plug; other site 266264016083 ligand-binding site; other site 266264016084 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 266264016085 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 266264016086 N-terminal plug; other site 266264016087 ligand-binding site; other site 266264016088 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 266264016089 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 266264016090 G1 box; other site 266264016091 putative GEF interaction site; other site 266264016092 GTP/Mg2+ binding site; other site 266264016093 Switch I region; other site 266264016094 G2 box; other site 266264016095 G3 box; other site 266264016096 Switch II region; other site 266264016097 G4 box; other site 266264016098 G5 box; other site 266264016099 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 266264016100 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 266264016101 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 266264016102 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...; Region: AAA; cd00009 266264016103 Walker A motif; other site 266264016104 ATP binding site; other site 266264016105 Walker B motif; other site 266264016106 arginine finger; other site 266264016107 Permease family; Region: Xan_ur_permease; cl00967 266264016108 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 266264016109 DNA-binding site; other site 266264016110 RNA-binding motif; other site