-- dump date 20140619_135723 -- class Genbank::misc_feature -- table misc_feature_note -- id note 225937000001 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 225937000002 isovaleryl-CoA dehydrogenase; Region: PLN02519 225937000003 substrate binding site [chemical binding]; other site 225937000004 FAD binding site [chemical binding]; other site 225937000005 catalytic base [active] 225937000006 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 225937000007 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 225937000008 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 225937000009 NAD(P) binding site [chemical binding]; other site 225937000010 putative acyltransferase; Provisional; Region: PRK05790 225937000011 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 225937000012 dimer interface [polypeptide binding]; other site 225937000013 active site 225937000014 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 225937000015 putative NAD(P) binding site [chemical binding]; other site 225937000016 putative active site [active] 225937000017 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 225937000018 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 225937000019 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 225937000020 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 225937000021 Protein export membrane protein; Region: SecD_SecF; cl14618 225937000022 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 225937000023 active site 225937000024 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 225937000025 enoyl-CoA hydratase; Provisional; Region: PRK07657 225937000026 substrate binding site [chemical binding]; other site 225937000027 oxyanion hole (OAH) forming residues; other site 225937000028 trimer interface [polypeptide binding]; other site 225937000029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937000030 NAD(P) binding site [chemical binding]; other site 225937000031 active site 225937000032 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937000033 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937000034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937000035 NAD(P) binding site [chemical binding]; other site 225937000036 active site 225937000037 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 225937000038 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 225937000039 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 225937000040 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937000041 Cytochrome P450; Region: p450; cl12078 225937000042 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 225937000043 SnoaL-like domain; Region: SnoaL_2; pfam12680 225937000044 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 225937000045 Ligand Binding Site [chemical binding]; other site 225937000046 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 225937000047 iron-sulfur cluster [ion binding]; other site 225937000048 [2Fe-2S] cluster binding site [ion binding]; other site 225937000049 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 225937000050 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 225937000051 beta subunit interface [polypeptide binding]; other site 225937000052 alpha subunit interface [polypeptide binding]; other site 225937000053 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 225937000054 inter-subunit interface; other site 225937000055 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 225937000056 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937000057 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 225937000058 putative substrate translocation pore; other site 225937000059 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 225937000060 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 225937000061 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937000062 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937000063 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937000064 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 225937000065 putative substrate translocation pore; other site 225937000066 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937000067 dimerization interface [polypeptide binding]; other site 225937000068 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937000069 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937000070 dimer interface [polypeptide binding]; other site 225937000071 putative CheW interface [polypeptide binding]; other site 225937000072 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 225937000073 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 225937000074 classical (c) SDRs; Region: SDR_c; cd05233 225937000075 NAD(P) binding site [chemical binding]; other site 225937000076 active site 225937000077 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 225937000078 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 225937000079 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 225937000080 active site 225937000081 metal binding site [ion binding]; metal-binding site 225937000082 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 225937000083 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 225937000084 Transcriptional regulator [Transcription]; Region: IclR; COG1414 225937000085 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 225937000086 Bacterial transcriptional regulator; Region: IclR; pfam01614 225937000087 lipid-transfer protein; Provisional; Region: PRK07855 225937000088 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 225937000089 active site 225937000090 DUF35 OB-fold domain; Region: DUF35; pfam01796 225937000091 short chain dehydrogenase; Provisional; Region: PRK12828 225937000092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937000093 NAD(P) binding site [chemical binding]; other site 225937000094 active site 225937000095 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 225937000096 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 225937000097 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 225937000098 iron-sulfur cluster [ion binding]; other site 225937000099 [2Fe-2S] cluster binding site [ion binding]; other site 225937000100 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 225937000101 beta subunit interface [polypeptide binding]; other site 225937000102 alpha subunit interface [polypeptide binding]; other site 225937000103 active site 225937000104 substrate binding site [chemical binding]; other site 225937000105 Fe binding site [ion binding]; other site 225937000106 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 225937000107 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 225937000108 classical (c) SDRs; Region: SDR_c; cd05233 225937000109 NAD(P) binding site [chemical binding]; other site 225937000110 active site 225937000111 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 225937000112 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225937000113 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 225937000114 acyl-activating enzyme (AAE) consensus motif; other site 225937000115 putative AMP binding site [chemical binding]; other site 225937000116 putative active site [active] 225937000117 putative CoA binding site [chemical binding]; other site 225937000118 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937000119 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937000120 Amidohydrolase; Region: Amidohydro_2; pfam04909 225937000121 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 225937000122 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 225937000123 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 225937000124 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK09260 225937000125 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 225937000126 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225937000127 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 225937000128 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 225937000129 dimer interface [polypeptide binding]; other site 225937000130 active site 225937000131 Uncharacterized conserved protein [Function unknown]; Region: COG2128 225937000132 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 225937000133 Cytochrome P450; Region: p450; cl12078 225937000134 Amidohydrolase; Region: Amidohydro_2; pfam04909 225937000135 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937000136 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937000137 active site 225937000138 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 225937000139 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937000140 active site 225937000141 enoyl-CoA hydratase; Provisional; Region: PRK09245 225937000142 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 225937000143 substrate binding site [chemical binding]; other site 225937000144 oxyanion hole (OAH) forming residues; other site 225937000145 trimer interface [polypeptide binding]; other site 225937000146 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937000147 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937000148 active site 225937000149 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 225937000150 homodecamer interface [polypeptide binding]; other site 225937000151 GTP cyclohydrolase I; Provisional; Region: PLN03044 225937000152 active site 225937000153 putative catalytic site residues [active] 225937000154 zinc binding site [ion binding]; other site 225937000155 GTP-CH-I/GFRP interaction surface; other site 225937000156 short chain dehydrogenase; Provisional; Region: PRK06500 225937000157 classical (c) SDRs; Region: SDR_c; cd05233 225937000158 NAD(P) binding site [chemical binding]; other site 225937000159 active site 225937000160 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 225937000161 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 225937000162 putative DNA binding site [nucleotide binding]; other site 225937000163 putative Zn2+ binding site [ion binding]; other site 225937000164 AsnC family; Region: AsnC_trans_reg; pfam01037 225937000165 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 225937000166 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 225937000167 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 225937000168 tetramer interface [polypeptide binding]; other site 225937000169 TPP-binding site [chemical binding]; other site 225937000170 heterodimer interface [polypeptide binding]; other site 225937000171 phosphorylation loop region [posttranslational modification] 225937000172 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 225937000173 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 225937000174 dimer interface [polypeptide binding]; other site 225937000175 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 225937000176 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 225937000177 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 225937000178 E3 interaction surface; other site 225937000179 lipoyl attachment site [posttranslational modification]; other site 225937000180 e3 binding domain; Region: E3_binding; pfam02817 225937000181 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 225937000182 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 225937000183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937000184 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225937000185 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 225937000186 putative active site [active] 225937000187 putative metal binding residues [ion binding]; other site 225937000188 signature motif; other site 225937000189 putative triphosphate binding site [ion binding]; other site 225937000190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937000191 active site 225937000192 PAS domain S-box; Region: sensory_box; TIGR00229 225937000193 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 225937000194 putative active site [active] 225937000195 heme pocket [chemical binding]; other site 225937000196 PAS domain; Region: PAS_9; pfam13426 225937000197 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 225937000198 putative active site [active] 225937000199 heme pocket [chemical binding]; other site 225937000200 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937000201 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937000202 metal binding site [ion binding]; metal-binding site 225937000203 active site 225937000204 I-site; other site 225937000205 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 225937000206 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 225937000207 active site 225937000208 Int/Topo IB signature motif; other site 225937000209 catalytic residues [active] 225937000210 DNA binding site [nucleotide binding] 225937000211 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 225937000212 active site 225937000213 catalytic residues [active] 225937000214 DNA binding site [nucleotide binding] 225937000215 Int/Topo IB signature motif; other site 225937000216 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 225937000217 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 225937000218 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 225937000219 active site 225937000220 DNA binding site [nucleotide binding] 225937000221 Int/Topo IB signature motif; other site 225937000222 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 225937000223 sequence-specific DNA binding site [nucleotide binding]; other site 225937000224 salt bridge; other site 225937000225 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 225937000226 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 225937000227 Cu(I) binding site [ion binding]; other site 225937000228 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 225937000229 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 225937000230 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 225937000231 Thioredoxin; Region: Thioredoxin_4; pfam13462 225937000232 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 225937000233 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 225937000234 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 225937000235 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 225937000236 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 225937000237 DNA binding residues [nucleotide binding] 225937000238 dimer interface [polypeptide binding]; other site 225937000239 putative metal binding site [ion binding]; other site 225937000240 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 225937000241 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 225937000242 Cu(I) binding site [ion binding]; other site 225937000243 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 225937000244 Thioredoxin; Region: Thioredoxin_4; pfam13462 225937000245 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 225937000246 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 225937000247 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 225937000248 Heavy-metal-associated domain; Region: HMA; pfam00403 225937000249 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 225937000250 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 225937000251 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 225937000252 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 225937000253 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 225937000254 eyelet of channel; other site 225937000255 trimer interface [polypeptide binding]; other site 225937000256 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 225937000257 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 225937000258 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 225937000259 ATP binding site [chemical binding]; other site 225937000260 Mg2+ binding site [ion binding]; other site 225937000261 G-X-G motif; other site 225937000262 Porin subfamily; Region: Porin_2; pfam02530 225937000263 Uncharacterized conserved protein (DUF2217); Region: DUF2217; pfam10265 225937000264 Outer membrane efflux protein; Region: OEP; pfam02321 225937000265 Outer membrane efflux protein; Region: OEP; pfam02321 225937000266 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225937000267 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 225937000268 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937000269 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 225937000270 Nitrogen regulatory protein P-II; Region: P-II; cl00412 225937000271 Nitrogen regulatory protein P-II; Region: P-II; smart00938 225937000272 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 225937000273 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 225937000274 N-terminal plug; other site 225937000275 ligand-binding site [chemical binding]; other site 225937000276 Outer membrane efflux protein; Region: OEP; pfam02321 225937000277 Outer membrane efflux protein; Region: OEP; pfam02321 225937000278 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937000279 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 225937000280 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937000281 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 225937000282 Protein export membrane protein; Region: SecD_SecF; cl14618 225937000283 sensor protein PhoQ; Provisional; Region: PRK10815 225937000284 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 225937000285 ATP binding site [chemical binding]; other site 225937000286 Mg2+ binding site [ion binding]; other site 225937000287 G-X-G motif; other site 225937000288 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 225937000289 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 225937000290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937000291 active site 225937000292 phosphorylation site [posttranslational modification] 225937000293 intermolecular recognition site; other site 225937000294 dimerization interface [polypeptide binding]; other site 225937000295 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 225937000296 DNA binding site [nucleotide binding] 225937000297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225937000298 Transposase; Region: HTH_Tnp_1; pfam01527 225937000299 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; cl17393 225937000300 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 225937000301 Helix-turn-helix domain; Region: HTH_38; pfam13936 225937000302 Homeodomain-like domain; Region: HTH_32; pfam13565 225937000303 Integrase core domain; Region: rve; pfam00665 225937000304 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 225937000305 HTH-like domain; Region: HTH_21; pfam13276 225937000306 Integrase core domain; Region: rve; pfam00665 225937000307 Integrase core domain; Region: rve_3; pfam13683 225937000308 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 225937000309 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 225937000310 ssDNA binding site [nucleotide binding]; other site 225937000311 dimer interface [polypeptide binding]; other site 225937000312 tetramer (dimer of dimers) interface [polypeptide binding]; other site 225937000313 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 225937000314 RecT family; Region: RecT; pfam03837 225937000315 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 225937000316 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 225937000317 Walker A motif; other site 225937000318 ATP binding site [chemical binding]; other site 225937000319 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 225937000320 Walker B motif; other site 225937000321 arginine finger; other site 225937000322 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 225937000323 WGR domain; Region: WGR; cl01581 225937000324 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 225937000325 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 225937000326 metal ion-dependent adhesion site (MIDAS); other site 225937000327 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 225937000328 Toprim domain; Region: Toprim_3; pfam13362 225937000329 Divergent AAA domain; Region: AAA_4; pfam04326 225937000330 Thioredoxin; Region: Thioredoxin_4; cl17273 225937000331 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 225937000332 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 225937000333 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 225937000334 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 225937000335 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 225937000336 Predicted metal-binding protein [General function prediction only]; Region: COG3019 225937000337 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 225937000338 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 225937000339 Heavy-metal-associated domain; Region: HMA; pfam00403 225937000340 metal-binding site [ion binding] 225937000341 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 225937000342 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 225937000343 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 225937000344 Domain of unknown function DUF302; Region: DUF302; pfam03625 225937000345 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 225937000346 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 225937000347 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 225937000348 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 225937000349 motif II; other site 225937000350 amino acid transporter; Region: 2A0306; TIGR00909 225937000351 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 225937000352 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 225937000353 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 225937000354 Multicopper oxidase; Region: Cu-oxidase; pfam00394 225937000355 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 225937000356 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 225937000357 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225937000358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937000359 active site 225937000360 phosphorylation site [posttranslational modification] 225937000361 intermolecular recognition site; other site 225937000362 dimerization interface [polypeptide binding]; other site 225937000363 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937000364 DNA binding site [nucleotide binding] 225937000365 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937000366 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 225937000367 ATP binding site [chemical binding]; other site 225937000368 Mg2+ binding site [ion binding]; other site 225937000369 G-X-G motif; other site 225937000370 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 225937000371 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 225937000372 putative transcriptional regulator MerR; Provisional; Region: PRK13752 225937000373 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 225937000374 DNA binding residues [nucleotide binding] 225937000375 dimer interface [polypeptide binding]; other site 225937000376 mercury binding site [ion binding]; other site 225937000377 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 225937000378 metal-binding site [ion binding] 225937000379 Membrane transport protein MerF; Region: Transport_MerF; pfam11431 225937000380 putative mercuric reductase; Provisional; Region: PRK14694 225937000381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937000382 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225937000383 Cytochrome c; Region: Cytochrom_C; pfam00034 225937000384 YaeQ protein; Region: YaeQ; pfam07152 225937000385 LrgA family; Region: LrgA; pfam03788 225937000386 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 225937000387 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 225937000388 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 225937000389 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 225937000390 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937000391 dimer interface [polypeptide binding]; other site 225937000392 conserved gate region; other site 225937000393 putative PBP binding loops; other site 225937000394 ABC-ATPase subunit interface; other site 225937000395 dipeptide transporter; Provisional; Region: PRK10913 225937000396 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937000397 dimer interface [polypeptide binding]; other site 225937000398 conserved gate region; other site 225937000399 putative PBP binding loops; other site 225937000400 ABC-ATPase subunit interface; other site 225937000401 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 225937000402 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 225937000403 Walker A/P-loop; other site 225937000404 ATP binding site [chemical binding]; other site 225937000405 Q-loop/lid; other site 225937000406 ABC transporter signature motif; other site 225937000407 Walker B; other site 225937000408 D-loop; other site 225937000409 H-loop/switch region; other site 225937000410 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 225937000411 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 225937000412 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 225937000413 Walker A/P-loop; other site 225937000414 ATP binding site [chemical binding]; other site 225937000415 Q-loop/lid; other site 225937000416 ABC transporter signature motif; other site 225937000417 Walker B; other site 225937000418 D-loop; other site 225937000419 H-loop/switch region; other site 225937000420 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 225937000421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937000422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937000423 LysR substrate binding domain; Region: LysR_substrate; pfam03466 225937000424 proline dipeptidase; Provisional; Region: PRK13607 225937000425 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 225937000426 active site 225937000427 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 225937000428 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 225937000429 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 225937000430 heme binding site [chemical binding]; other site 225937000431 ferroxidase pore; other site 225937000432 ferroxidase diiron center [ion binding]; other site 225937000433 phosphomannomutase CpsG; Provisional; Region: PRK15414 225937000434 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 225937000435 active site 225937000436 substrate binding site [chemical binding]; other site 225937000437 metal binding site [ion binding]; metal-binding site 225937000438 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 225937000439 substrate binding site [chemical binding]; other site 225937000440 dimerization interface [polypeptide binding]; other site 225937000441 active site 225937000442 calcium binding site [ion binding]; other site 225937000443 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 225937000444 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 225937000445 Part of AAA domain; Region: AAA_19; pfam13245 225937000446 Family description; Region: UvrD_C_2; pfam13538 225937000447 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937000448 metal binding site [ion binding]; metal-binding site 225937000449 active site 225937000450 I-site; other site 225937000451 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 225937000452 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 225937000453 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 225937000454 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 225937000455 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 225937000456 RNA binding site [nucleotide binding]; other site 225937000457 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 225937000458 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 225937000459 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 225937000460 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 225937000461 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 225937000462 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 225937000463 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225937000464 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225937000465 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 225937000466 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 225937000467 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225937000468 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225937000469 ABC transporter; Region: ABC_tran_2; pfam12848 225937000470 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225937000471 exopolyphosphatase; Provisional; Region: PRK10854 225937000472 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 225937000473 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 225937000474 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225937000475 catalytic residues [active] 225937000476 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 225937000477 MoaE homodimer interface [polypeptide binding]; other site 225937000478 MoaD interaction [polypeptide binding]; other site 225937000479 active site residues [active] 225937000480 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 225937000481 MoaE interaction surface [polypeptide binding]; other site 225937000482 MoeB interaction surface [polypeptide binding]; other site 225937000483 thiocarboxylated glycine; other site 225937000484 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 225937000485 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 225937000486 dimer interface [polypeptide binding]; other site 225937000487 putative functional site; other site 225937000488 putative MPT binding site; other site 225937000489 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 225937000490 MPT binding site; other site 225937000491 trimer interface [polypeptide binding]; other site 225937000492 transcription termination factor Rho; Provisional; Region: rho; PRK09376 225937000493 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 225937000494 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 225937000495 RNA binding site [nucleotide binding]; other site 225937000496 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 225937000497 multimer interface [polypeptide binding]; other site 225937000498 Walker A motif; other site 225937000499 ATP binding site [chemical binding]; other site 225937000500 Walker B motif; other site 225937000501 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 225937000502 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 225937000503 FMN reductase; Validated; Region: fre; PRK08051 225937000504 FAD binding pocket [chemical binding]; other site 225937000505 FAD binding motif [chemical binding]; other site 225937000506 phosphate binding motif [ion binding]; other site 225937000507 beta-alpha-beta structure motif; other site 225937000508 NAD binding pocket [chemical binding]; other site 225937000509 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 225937000510 HemY protein N-terminus; Region: HemY_N; pfam07219 225937000511 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 225937000512 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 225937000513 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 225937000514 active site 225937000515 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 225937000516 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 225937000517 domain interfaces; other site 225937000518 active site 225937000519 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 225937000520 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937000521 active site 225937000522 phosphorylation site [posttranslational modification] 225937000523 intermolecular recognition site; other site 225937000524 dimerization interface [polypeptide binding]; other site 225937000525 LytTr DNA-binding domain; Region: LytTR; smart00850 225937000526 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 225937000527 Histidine kinase; Region: His_kinase; pfam06580 225937000528 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 225937000529 argininosuccinate lyase; Provisional; Region: PRK00855 225937000530 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 225937000531 active sites [active] 225937000532 tetramer interface [polypeptide binding]; other site 225937000533 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 225937000534 PAS domain; Region: PAS_9; pfam13426 225937000535 putative active site [active] 225937000536 heme pocket [chemical binding]; other site 225937000537 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937000538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937000539 metal binding site [ion binding]; metal-binding site 225937000540 active site 225937000541 I-site; other site 225937000542 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 225937000543 adenylate cyclase; Provisional; Region: cyaA; PRK09450 225937000544 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 225937000545 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 225937000546 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 225937000547 diaminopimelate decarboxylase; Region: lysA; TIGR01048 225937000548 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 225937000549 active site 225937000550 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225937000551 substrate binding site [chemical binding]; other site 225937000552 catalytic residues [active] 225937000553 dimer interface [polypeptide binding]; other site 225937000554 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 225937000555 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 225937000556 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 225937000557 Protein of unknown function, DUF484; Region: DUF484; cl17449 225937000558 GAF domain; Region: GAF_2; pfam13185 225937000559 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 225937000560 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 225937000561 active site 225937000562 Int/Topo IB signature motif; other site 225937000563 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937000564 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937000565 metal binding site [ion binding]; metal-binding site 225937000566 active site 225937000567 I-site; other site 225937000568 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 225937000569 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937000570 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937000571 substrate binding pocket [chemical binding]; other site 225937000572 membrane-bound complex binding site; other site 225937000573 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937000574 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937000575 substrate binding pocket [chemical binding]; other site 225937000576 membrane-bound complex binding site; other site 225937000577 hinge residues; other site 225937000578 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937000579 dimer interface [polypeptide binding]; other site 225937000580 phosphorylation site [posttranslational modification] 225937000581 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 225937000582 ATP binding site [chemical binding]; other site 225937000583 Mg2+ binding site [ion binding]; other site 225937000584 G-X-G motif; other site 225937000585 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 225937000586 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 225937000587 active site 225937000588 nucleophile elbow; other site 225937000589 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225937000590 Transcriptional regulators [Transcription]; Region: GntR; COG1802 225937000591 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937000592 DNA-binding site [nucleotide binding]; DNA binding site 225937000593 FCD domain; Region: FCD; pfam07729 225937000594 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 225937000595 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 225937000596 putative active site [active] 225937000597 catalytic site [active] 225937000598 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 225937000599 putative active site [active] 225937000600 catalytic site [active] 225937000601 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937000602 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937000603 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937000604 acyl-CoA esterase; Provisional; Region: PRK10673 225937000605 PGAP1-like protein; Region: PGAP1; pfam07819 225937000606 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 225937000607 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 225937000608 Strictosidine synthase; Region: Str_synth; pfam03088 225937000609 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 225937000610 active site 225937000611 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 225937000612 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 225937000613 putative NAD(P) binding site [chemical binding]; other site 225937000614 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 225937000615 TrkA-N domain; Region: TrkA_N; pfam02254 225937000616 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 225937000617 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 225937000618 putative ATP binding site [chemical binding]; other site 225937000619 putative substrate interface [chemical binding]; other site 225937000620 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 225937000621 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 225937000622 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937000623 active site 225937000624 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 225937000625 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 225937000626 NADP binding site [chemical binding]; other site 225937000627 homodimer interface [polypeptide binding]; other site 225937000628 active site 225937000629 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 225937000630 Putative zinc-finger; Region: zf-HC2; pfam13490 225937000631 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 225937000632 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 225937000633 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937000634 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937000635 DNA binding residues [nucleotide binding] 225937000636 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937000637 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937000638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937000639 arginine decarboxylase; Provisional; Region: PRK05354 225937000640 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 225937000641 active site 225937000642 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225937000643 catalytic residues [active] 225937000644 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 225937000645 spermidine synthase; Provisional; Region: PRK00811 225937000646 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 225937000647 S-adenosylmethionine binding site [chemical binding]; other site 225937000648 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 225937000649 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 225937000650 Nitrogen regulatory protein P-II; Region: P-II; smart00938 225937000651 Membrane fusogenic activity; Region: BMFP; pfam04380 225937000652 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 225937000653 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 225937000654 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 225937000655 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 225937000656 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 225937000657 S-adenosylmethionine binding site [chemical binding]; other site 225937000658 HemN family oxidoreductase; Provisional; Region: PRK05660 225937000659 HemN C-terminal domain; Region: HemN_C; pfam06969 225937000660 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 225937000661 active site 225937000662 dimerization interface [polypeptide binding]; other site 225937000663 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 225937000664 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; cl17173 225937000665 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 225937000666 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 225937000667 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 225937000668 Dynamin family; Region: Dynamin_N; pfam00350 225937000669 G1 box; other site 225937000670 GTP/Mg2+ binding site [chemical binding]; other site 225937000671 G2 box; other site 225937000672 Switch I region; other site 225937000673 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 225937000674 G3 box; other site 225937000675 Switch II region; other site 225937000676 GTP/Mg2+ binding site [chemical binding]; other site 225937000677 G4 box; other site 225937000678 G5 box; other site 225937000679 YGGT family; Region: YGGT; pfam02325 225937000680 YGGT family; Region: YGGT; pfam02325 225937000681 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 225937000682 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 225937000683 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 225937000684 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225937000685 catalytic residue [active] 225937000686 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 225937000687 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 225937000688 Walker A motif; other site 225937000689 ATP binding site [chemical binding]; other site 225937000690 Walker B motif; other site 225937000691 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 225937000692 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 225937000693 Walker A motif; other site 225937000694 ATP binding site [chemical binding]; other site 225937000695 Walker B motif; other site 225937000696 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 225937000697 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 225937000698 DNA polymerase I; Provisional; Region: PRK05755 225937000699 active site 225937000700 putative 5' ssDNA interaction site; other site 225937000701 metal binding site 3; metal-binding site 225937000702 metal binding site 1 [ion binding]; metal-binding site 225937000703 metal binding site 2 [ion binding]; metal-binding site 225937000704 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 225937000705 putative DNA binding site [nucleotide binding]; other site 225937000706 putative metal binding site [ion binding]; other site 225937000707 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 225937000708 active site 225937000709 catalytic site [active] 225937000710 substrate binding site [chemical binding]; other site 225937000711 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 225937000712 active site 225937000713 DNA binding site [nucleotide binding] 225937000714 catalytic site [active] 225937000715 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 225937000716 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 225937000717 Interdomain contacts; other site 225937000718 Cytokine receptor motif; other site 225937000719 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225937000720 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225937000721 active site 225937000722 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 225937000723 putative active site [active] 225937000724 putative catalytic site [active] 225937000725 putative DNA binding site [nucleotide binding]; other site 225937000726 putative phosphate binding site [ion binding]; other site 225937000727 metal binding site A [ion binding]; metal-binding site 225937000728 putative AP binding site [nucleotide binding]; other site 225937000729 putative metal binding site B [ion binding]; other site 225937000730 ribonuclease PH; Reviewed; Region: rph; PRK00173 225937000731 Ribonuclease PH; Region: RNase_PH_bact; cd11362 225937000732 hexamer interface [polypeptide binding]; other site 225937000733 active site 225937000734 hypothetical protein; Provisional; Region: PRK11820 225937000735 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 225937000736 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 225937000737 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 225937000738 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225937000739 active site 225937000740 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 225937000741 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 225937000742 catalytic site [active] 225937000743 G-X2-G-X-G-K; other site 225937000744 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 225937000745 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 225937000746 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937000747 Zn2+ binding site [ion binding]; other site 225937000748 Mg2+ binding site [ion binding]; other site 225937000749 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 225937000750 synthetase active site [active] 225937000751 NTP binding site [chemical binding]; other site 225937000752 metal binding site [ion binding]; metal-binding site 225937000753 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 225937000754 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 225937000755 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 225937000756 homotrimer interaction site [polypeptide binding]; other site 225937000757 putative active site [active] 225937000758 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 225937000759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937000760 NAD(P) binding site [chemical binding]; other site 225937000761 active site 225937000762 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937000763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937000764 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 225937000765 dimerization interface [polypeptide binding]; other site 225937000766 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 225937000767 Y-family of DNA polymerases; Region: PolY; cl12025 225937000768 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 225937000769 generic binding surface II; other site 225937000770 ssDNA binding site; other site 225937000771 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 225937000772 ATP binding site [chemical binding]; other site 225937000773 putative Mg++ binding site [ion binding]; other site 225937000774 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 225937000775 nucleotide binding region [chemical binding]; other site 225937000776 ATP-binding site [chemical binding]; other site 225937000777 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 225937000778 putative deacylase active site [active] 225937000779 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 225937000780 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 225937000781 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 225937000782 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 225937000783 putative [Fe4-S4] binding site [ion binding]; other site 225937000784 putative molybdopterin cofactor binding site [chemical binding]; other site 225937000785 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 225937000786 putative molybdopterin cofactor binding site; other site 225937000787 Bacterial Ig-like domain; Region: Big_5; pfam13205 225937000788 Bacterial Ig-like domain; Region: Big_5; pfam13205 225937000789 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 225937000790 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 225937000791 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 225937000792 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 225937000793 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 225937000794 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937000795 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 225937000796 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937000797 DNA binding residues [nucleotide binding] 225937000798 DNA primase; Validated; Region: dnaG; PRK05667 225937000799 CHC2 zinc finger; Region: zf-CHC2; pfam01807 225937000800 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 225937000801 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 225937000802 active site 225937000803 metal binding site [ion binding]; metal-binding site 225937000804 interdomain interaction site; other site 225937000805 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 225937000806 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 225937000807 UGMP family protein; Validated; Region: PRK09604 225937000808 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 225937000809 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 225937000810 Dihydroneopterin aldolase; Region: FolB; smart00905 225937000811 active site 225937000812 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 225937000813 catalytic center binding site [active] 225937000814 ATP binding site [chemical binding]; other site 225937000815 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 225937000816 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 225937000817 active site 225937000818 dimer interface [polypeptide binding]; other site 225937000819 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 225937000820 dimer interface [polypeptide binding]; other site 225937000821 active site 225937000822 Pantoate-beta-alanine ligase; Region: PanC; cd00560 225937000823 pantoate--beta-alanine ligase; Region: panC; TIGR00018 225937000824 active site 225937000825 ATP-binding site [chemical binding]; other site 225937000826 pantoate-binding site; other site 225937000827 HXXH motif; other site 225937000828 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 225937000829 oligomerization interface [polypeptide binding]; other site 225937000830 active site 225937000831 metal binding site [ion binding]; metal-binding site 225937000832 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 225937000833 catalytic center binding site [active] 225937000834 ATP binding site [chemical binding]; other site 225937000835 poly(A) polymerase; Region: pcnB; TIGR01942 225937000836 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 225937000837 active site 225937000838 NTP binding site [chemical binding]; other site 225937000839 metal binding triad [ion binding]; metal-binding site 225937000840 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 225937000841 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 225937000842 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225937000843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937000844 active site 225937000845 phosphorylation site [posttranslational modification] 225937000846 intermolecular recognition site; other site 225937000847 dimerization interface [polypeptide binding]; other site 225937000848 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937000849 Walker A motif; other site 225937000850 ATP binding site [chemical binding]; other site 225937000851 Walker B motif; other site 225937000852 arginine finger; other site 225937000853 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 225937000854 Na binding site [ion binding]; other site 225937000855 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 225937000856 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 225937000857 putative active site [active] 225937000858 heme pocket [chemical binding]; other site 225937000859 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937000860 dimer interface [polypeptide binding]; other site 225937000861 phosphorylation site [posttranslational modification] 225937000862 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 225937000863 ATP binding site [chemical binding]; other site 225937000864 Mg2+ binding site [ion binding]; other site 225937000865 G-X-G motif; other site 225937000866 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 225937000867 active site 225937000868 HIGH motif; other site 225937000869 nucleotide binding site [chemical binding]; other site 225937000870 active site 225937000871 KMSKS motif; other site 225937000872 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 225937000873 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 225937000874 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 225937000875 iron-sulfur cluster [ion binding]; other site 225937000876 [2Fe-2S] cluster binding site [ion binding]; other site 225937000877 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 225937000878 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225937000879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 225937000880 AAA domain; Region: AAA_33; pfam13671 225937000881 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 225937000882 ATP-binding site [chemical binding]; other site 225937000883 Gluconate-6-phosphate binding site [chemical binding]; other site 225937000884 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 225937000885 Transglycosylase; Region: Transgly; pfam00912 225937000886 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 225937000887 TPR repeat; Region: TPR_11; pfam13414 225937000888 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 225937000889 TPR motif; other site 225937000890 binding surface 225937000891 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 225937000892 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937000893 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 225937000894 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937000895 DNA binding residues [nucleotide binding] 225937000896 Putative zinc-finger; Region: zf-HC2; pfam13490 225937000897 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 225937000898 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 225937000899 TPR motif; other site 225937000900 binding surface 225937000901 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 225937000902 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 225937000903 catalytic site [active] 225937000904 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 225937000905 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 225937000906 inhibitor-cofactor binding pocket; inhibition site 225937000907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937000908 catalytic residue [active] 225937000909 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 225937000910 thiamine phosphate binding site [chemical binding]; other site 225937000911 active site 225937000912 pyrophosphate binding site [ion binding]; other site 225937000913 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 225937000914 substrate binding site [chemical binding]; other site 225937000915 ATP binding site [chemical binding]; other site 225937000916 Predicted membrane protein [Function unknown]; Region: COG1981 225937000917 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 225937000918 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 225937000919 Cl- selectivity filter; other site 225937000920 Cl- binding residues [ion binding]; other site 225937000921 pore gating glutamate residue; other site 225937000922 dimer interface [polypeptide binding]; other site 225937000923 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 225937000924 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 225937000925 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 225937000926 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 225937000927 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 225937000928 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 225937000929 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 225937000930 putative peptidase; Provisional; Region: PRK11649 225937000931 Peptidase family M23; Region: Peptidase_M23; pfam01551 225937000932 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 225937000933 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 225937000934 active site 225937000935 HIGH motif; other site 225937000936 dimer interface [polypeptide binding]; other site 225937000937 KMSKS motif; other site 225937000938 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 225937000939 Biotin operon repressor [Transcription]; Region: BirA; COG1654 225937000940 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 225937000941 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 225937000942 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 225937000943 elongation factor Tu; Reviewed; Region: PRK00049 225937000944 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 225937000945 G1 box; other site 225937000946 GEF interaction site [polypeptide binding]; other site 225937000947 GTP/Mg2+ binding site [chemical binding]; other site 225937000948 Switch I region; other site 225937000949 G2 box; other site 225937000950 G3 box; other site 225937000951 Switch II region; other site 225937000952 G4 box; other site 225937000953 G5 box; other site 225937000954 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 225937000955 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 225937000956 Antibiotic Binding Site [chemical binding]; other site 225937000957 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 225937000958 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 225937000959 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 225937000960 putative homodimer interface [polypeptide binding]; other site 225937000961 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 225937000962 heterodimer interface [polypeptide binding]; other site 225937000963 homodimer interface [polypeptide binding]; other site 225937000964 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 225937000965 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 225937000966 23S rRNA interface [nucleotide binding]; other site 225937000967 L7/L12 interface [polypeptide binding]; other site 225937000968 putative thiostrepton binding site; other site 225937000969 L25 interface [polypeptide binding]; other site 225937000970 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 225937000971 mRNA/rRNA interface [nucleotide binding]; other site 225937000972 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 225937000973 23S rRNA interface [nucleotide binding]; other site 225937000974 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 225937000975 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 225937000976 core dimer interface [polypeptide binding]; other site 225937000977 peripheral dimer interface [polypeptide binding]; other site 225937000978 L10 interface [polypeptide binding]; other site 225937000979 L11 interface [polypeptide binding]; other site 225937000980 putative EF-Tu interaction site [polypeptide binding]; other site 225937000981 putative EF-G interaction site [polypeptide binding]; other site 225937000982 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 225937000983 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; cl17585 225937000984 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 225937000985 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 225937000986 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 225937000987 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 225937000988 RPB3 interaction site [polypeptide binding]; other site 225937000989 RPB1 interaction site [polypeptide binding]; other site 225937000990 RPB11 interaction site [polypeptide binding]; other site 225937000991 RPB10 interaction site [polypeptide binding]; other site 225937000992 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 225937000993 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 225937000994 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 225937000995 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 225937000996 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 225937000997 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 225937000998 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 225937000999 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 225937001000 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 225937001001 DNA binding site [nucleotide binding] 225937001002 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 225937001003 30S ribosomal protein S12; Validated; Region: rpsL; PRK05163 225937001004 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 225937001005 30S ribosomal protein S7; Validated; Region: PRK05302 225937001006 elongation factor G; Reviewed; Region: PRK00007 225937001007 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 225937001008 G1 box; other site 225937001009 putative GEF interaction site [polypeptide binding]; other site 225937001010 GTP/Mg2+ binding site [chemical binding]; other site 225937001011 Switch I region; other site 225937001012 G2 box; other site 225937001013 G3 box; other site 225937001014 Switch II region; other site 225937001015 G4 box; other site 225937001016 G5 box; other site 225937001017 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 225937001018 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 225937001019 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 225937001020 elongation factor Tu; Reviewed; Region: PRK00049 225937001021 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 225937001022 G1 box; other site 225937001023 GEF interaction site [polypeptide binding]; other site 225937001024 GTP/Mg2+ binding site [chemical binding]; other site 225937001025 Switch I region; other site 225937001026 G2 box; other site 225937001027 G3 box; other site 225937001028 Switch II region; other site 225937001029 G4 box; other site 225937001030 G5 box; other site 225937001031 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 225937001032 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 225937001033 Antibiotic Binding Site [chemical binding]; other site 225937001034 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 225937001035 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 225937001036 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 225937001037 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 225937001038 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 225937001039 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 225937001040 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 225937001041 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 225937001042 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 225937001043 putative translocon binding site; other site 225937001044 protein-rRNA interface [nucleotide binding]; other site 225937001045 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 225937001046 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 225937001047 G-X-X-G motif; other site 225937001048 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 225937001049 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 225937001050 23S rRNA interface [nucleotide binding]; other site 225937001051 5S rRNA interface [nucleotide binding]; other site 225937001052 putative antibiotic binding site [chemical binding]; other site 225937001053 L25 interface [polypeptide binding]; other site 225937001054 L27 interface [polypeptide binding]; other site 225937001055 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 225937001056 23S rRNA interface [nucleotide binding]; other site 225937001057 putative translocon interaction site; other site 225937001058 signal recognition particle (SRP54) interaction site; other site 225937001059 L23 interface [polypeptide binding]; other site 225937001060 trigger factor interaction site; other site 225937001061 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 225937001062 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 225937001063 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 225937001064 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 225937001065 RNA binding site [nucleotide binding]; other site 225937001066 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 225937001067 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 225937001068 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 225937001069 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 225937001070 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 225937001071 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 225937001072 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 225937001073 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 225937001074 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 225937001075 5S rRNA interface [nucleotide binding]; other site 225937001076 23S rRNA interface [nucleotide binding]; other site 225937001077 L5 interface [polypeptide binding]; other site 225937001078 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 225937001079 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 225937001080 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 225937001081 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 225937001082 23S rRNA binding site [nucleotide binding]; other site 225937001083 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 225937001084 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 225937001085 SecY translocase; Region: SecY; pfam00344 225937001086 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 225937001087 30S ribosomal protein S13; Region: bact_S13; TIGR03631 225937001088 30S ribosomal protein S11; Validated; Region: PRK05309 225937001089 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 225937001090 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 225937001091 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 225937001092 RNA binding surface [nucleotide binding]; other site 225937001093 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 225937001094 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 225937001095 alphaNTD - beta interaction site [polypeptide binding]; other site 225937001096 alphaNTD homodimer interface [polypeptide binding]; other site 225937001097 alphaNTD - beta' interaction site [polypeptide binding]; other site 225937001098 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 225937001099 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 225937001100 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 225937001101 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 225937001102 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 225937001103 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 225937001104 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937001105 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225937001106 putative substrate translocation pore; other site 225937001107 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 225937001108 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 225937001109 dimer interface [polypeptide binding]; other site 225937001110 ssDNA binding site [nucleotide binding]; other site 225937001111 tetramer (dimer of dimers) interface [polypeptide binding]; other site 225937001112 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 225937001113 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 225937001114 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 225937001115 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 225937001116 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 225937001117 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 225937001118 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 225937001119 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937001120 Walker A motif; other site 225937001121 ATP binding site [chemical binding]; other site 225937001122 Walker B motif; other site 225937001123 arginine finger; other site 225937001124 TPR repeat; Region: TPR_11; pfam13414 225937001125 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 225937001126 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 225937001127 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 225937001128 Walker A motif; other site 225937001129 ATP binding site [chemical binding]; other site 225937001130 Walker B motif; other site 225937001131 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 225937001132 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225937001133 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225937001134 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 225937001135 PilX N-terminal; Region: PilX_N; pfam14341 225937001136 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 225937001137 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 225937001138 legume lectins; Region: lectin_L-type; cl14058 225937001139 homotetramer interaction site [polypeptide binding]; other site 225937001140 homodimer interaction site [polypeptide binding]; other site 225937001141 carbohydrate binding site [chemical binding]; other site 225937001142 metal binding site [ion binding]; metal-binding site 225937001143 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 225937001144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937001145 active site 225937001146 phosphorylation site [posttranslational modification] 225937001147 intermolecular recognition site; other site 225937001148 dimerization interface [polypeptide binding]; other site 225937001149 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937001150 Walker A motif; other site 225937001151 ATP binding site [chemical binding]; other site 225937001152 Walker B motif; other site 225937001153 arginine finger; other site 225937001154 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937001155 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 225937001156 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 225937001157 putative active site [active] 225937001158 heme pocket [chemical binding]; other site 225937001159 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937001160 dimer interface [polypeptide binding]; other site 225937001161 phosphorylation site [posttranslational modification] 225937001162 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 225937001163 ATP binding site [chemical binding]; other site 225937001164 Mg2+ binding site [ion binding]; other site 225937001165 G-X-G motif; other site 225937001166 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225937001167 glutamine synthetase; Provisional; Region: glnA; PRK09469 225937001168 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 225937001169 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 225937001170 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 225937001171 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 225937001172 G1 box; other site 225937001173 putative GEF interaction site [polypeptide binding]; other site 225937001174 GTP/Mg2+ binding site [chemical binding]; other site 225937001175 Switch I region; other site 225937001176 G2 box; other site 225937001177 G3 box; other site 225937001178 Switch II region; other site 225937001179 G4 box; other site 225937001180 G5 box; other site 225937001181 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 225937001182 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 225937001183 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 225937001184 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 225937001185 putative active site [active] 225937001186 dimerization interface [polypeptide binding]; other site 225937001187 putative tRNAtyr binding site [nucleotide binding]; other site 225937001188 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 225937001189 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 225937001190 eyelet of channel; other site 225937001191 trimer interface [polypeptide binding]; other site 225937001192 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 225937001193 putative active site [active] 225937001194 putative metal binding residues [ion binding]; other site 225937001195 signature motif; other site 225937001196 putative triphosphate binding site [ion binding]; other site 225937001197 Ion channel; Region: Ion_trans_2; pfam07885 225937001198 TrkA-N domain; Region: TrkA_N; pfam02254 225937001199 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 225937001200 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225937001201 metal binding triad; other site 225937001202 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 225937001203 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225937001204 metal binding triad; other site 225937001205 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 225937001206 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 225937001207 homodimer interface [polypeptide binding]; other site 225937001208 substrate-cofactor binding pocket; other site 225937001209 catalytic residue [active] 225937001210 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 225937001211 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 225937001212 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 225937001213 putative active site [active] 225937001214 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 225937001215 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 225937001216 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 225937001217 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937001218 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 225937001219 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 225937001220 O-Antigen ligase; Region: Wzy_C; pfam04932 225937001221 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 225937001222 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 225937001223 putative metal binding site; other site 225937001224 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 225937001225 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 225937001226 putative acyl-acceptor binding pocket; other site 225937001227 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 225937001228 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 225937001229 Substrate binding site; other site 225937001230 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 225937001231 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 225937001232 putative metal binding site; other site 225937001233 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937001234 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 225937001235 putative ADP-binding pocket [chemical binding]; other site 225937001236 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937001237 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 225937001238 putative ADP-binding pocket [chemical binding]; other site 225937001239 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 225937001240 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 225937001241 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 225937001242 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 225937001243 putative acyl-acceptor binding pocket; other site 225937001244 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 225937001245 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 225937001246 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 225937001247 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 225937001248 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 225937001249 ThiC-associated domain; Region: ThiC-associated; pfam13667 225937001250 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 225937001251 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 225937001252 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 225937001253 dimer interface [polypeptide binding]; other site 225937001254 ADP-ribose binding site [chemical binding]; other site 225937001255 active site 225937001256 nudix motif; other site 225937001257 metal binding site [ion binding]; metal-binding site 225937001258 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 225937001259 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 225937001260 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225937001261 active site 225937001262 metal binding site [ion binding]; metal-binding site 225937001263 hexamer interface [polypeptide binding]; other site 225937001264 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 225937001265 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 225937001266 THF binding site; other site 225937001267 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 225937001268 substrate binding site [chemical binding]; other site 225937001269 THF binding site; other site 225937001270 zinc-binding site [ion binding]; other site 225937001271 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 225937001272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937001273 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 225937001274 putative dimerization interface [polypeptide binding]; other site 225937001275 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 225937001276 lipoyl attachment site [posttranslational modification]; other site 225937001277 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 225937001278 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 225937001279 putative RNA binding site [nucleotide binding]; other site 225937001280 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 225937001281 S-adenosylmethionine binding site [chemical binding]; other site 225937001282 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 225937001283 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 225937001284 RNA pyrophosphohydrolase; Reviewed; Region: PRK00714 225937001285 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 225937001286 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 225937001287 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 225937001288 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 225937001289 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 225937001290 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 225937001291 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 225937001292 nucleophile elbow; other site 225937001293 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 225937001294 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937001295 Walker A motif; other site 225937001296 ATP binding site [chemical binding]; other site 225937001297 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 225937001298 Walker B motif; other site 225937001299 arginine finger; other site 225937001300 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 225937001301 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 225937001302 active site 225937001303 HslU subunit interaction site [polypeptide binding]; other site 225937001304 Sporulation related domain; Region: SPOR; pfam05036 225937001305 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 225937001306 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 225937001307 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 225937001308 active site 225937001309 HIGH motif; other site 225937001310 KMSK motif region; other site 225937001311 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 225937001312 tRNA binding surface [nucleotide binding]; other site 225937001313 anticodon binding site; other site 225937001314 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 225937001315 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 225937001316 primosome assembly protein PriA; Validated; Region: PRK05580 225937001317 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 225937001318 ATP binding site [chemical binding]; other site 225937001319 putative Mg++ binding site [ion binding]; other site 225937001320 helicase superfamily c-terminal domain; Region: HELICc; smart00490 225937001321 ATP-binding site [chemical binding]; other site 225937001322 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 225937001323 Malic enzyme, N-terminal domain; Region: malic; pfam00390 225937001324 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 225937001325 putative NAD(P) binding site [chemical binding]; other site 225937001326 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 225937001327 Transglycosylase; Region: Transgly; pfam00912 225937001328 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 225937001329 Competence protein A; Region: Competence_A; pfam11104 225937001330 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 225937001331 nucleotide binding site [chemical binding]; other site 225937001332 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 225937001333 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 225937001334 Pilus assembly protein, PilO; Region: PilO; pfam04350 225937001335 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 225937001336 Pilus assembly protein, PilP; Region: PilP; pfam04351 225937001337 AMIN domain; Region: AMIN; pfam11741 225937001338 E3 Ubiquitin ligase; Region: GIDE; pfam12483 225937001339 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 225937001340 Secretin and TonB N terminus short domain; Region: STN; smart00965 225937001341 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 225937001342 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 225937001343 shikimate kinase; Reviewed; Region: aroK; PRK00131 225937001344 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 225937001345 ADP binding site [chemical binding]; other site 225937001346 magnesium binding site [ion binding]; other site 225937001347 putative shikimate binding site; other site 225937001348 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 225937001349 active site 225937001350 dimer interface [polypeptide binding]; other site 225937001351 metal binding site [ion binding]; metal-binding site 225937001352 AAA ATPase domain; Region: AAA_16; pfam13191 225937001353 AAA domain; Region: AAA_22; pfam13401 225937001354 Walker A motif; other site 225937001355 ATP binding site [chemical binding]; other site 225937001356 Walker B motif; other site 225937001357 Sporulation related domain; Region: SPOR; pfam05036 225937001358 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 225937001359 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 225937001360 active site 225937001361 dimer interface [polypeptide binding]; other site 225937001362 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 225937001363 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 225937001364 active site 225937001365 FMN binding site [chemical binding]; other site 225937001366 substrate binding site [chemical binding]; other site 225937001367 3Fe-4S cluster binding site [ion binding]; other site 225937001368 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 225937001369 domain interface; other site 225937001370 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 225937001371 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937001372 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937001373 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 225937001374 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 225937001375 substrate binding site [chemical binding]; other site 225937001376 active site 225937001377 PilZ domain; Region: PilZ; pfam07238 225937001378 DNA repair protein RadA; Provisional; Region: PRK11823 225937001379 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 225937001380 Walker A motif/ATP binding site; other site 225937001381 ATP binding site [chemical binding]; other site 225937001382 Walker B motif; other site 225937001383 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 225937001384 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 225937001385 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225937001386 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225937001387 ABC transporter; Region: ABC_tran_2; pfam12848 225937001388 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225937001389 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 225937001390 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 225937001391 dimer interface [polypeptide binding]; other site 225937001392 active site 225937001393 glycine-pyridoxal phosphate binding site [chemical binding]; other site 225937001394 folate binding site [chemical binding]; other site 225937001395 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 225937001396 ATP cone domain; Region: ATP-cone; pfam03477 225937001397 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 225937001398 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 225937001399 catalytic motif [active] 225937001400 Zn binding site [ion binding]; other site 225937001401 RibD C-terminal domain; Region: RibD_C; cl17279 225937001402 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 225937001403 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 225937001404 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 225937001405 dimerization interface [polypeptide binding]; other site 225937001406 active site 225937001407 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 225937001408 homopentamer interface [polypeptide binding]; other site 225937001409 active site 225937001410 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 225937001411 putative RNA binding site [nucleotide binding]; other site 225937001412 thiamine monophosphate kinase; Provisional; Region: PRK05731 225937001413 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 225937001414 ATP binding site [chemical binding]; other site 225937001415 dimerization interface [polypeptide binding]; other site 225937001416 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 225937001417 tetramer interfaces [polypeptide binding]; other site 225937001418 binuclear metal-binding site [ion binding]; other site 225937001419 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 225937001420 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 225937001421 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 225937001422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937001423 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 225937001424 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 225937001425 dimerization interface [polypeptide binding]; other site 225937001426 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 225937001427 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 225937001428 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 225937001429 putative dimer interface [polypeptide binding]; other site 225937001430 N-terminal domain interface [polypeptide binding]; other site 225937001431 putative substrate binding pocket (H-site) [chemical binding]; other site 225937001432 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 225937001433 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 225937001434 substrate binding pocket [chemical binding]; other site 225937001435 chain length determination region; other site 225937001436 substrate-Mg2+ binding site; other site 225937001437 catalytic residues [active] 225937001438 aspartate-rich region 1; other site 225937001439 active site lid residues [active] 225937001440 aspartate-rich region 2; other site 225937001441 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 225937001442 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 225937001443 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 225937001444 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 225937001445 GTP1/OBG; Region: GTP1_OBG; pfam01018 225937001446 Obg GTPase; Region: Obg; cd01898 225937001447 G1 box; other site 225937001448 GTP/Mg2+ binding site [chemical binding]; other site 225937001449 Switch I region; other site 225937001450 G2 box; other site 225937001451 G3 box; other site 225937001452 Switch II region; other site 225937001453 G4 box; other site 225937001454 G5 box; other site 225937001455 gamma-glutamyl kinase; Provisional; Region: PRK05429 225937001456 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 225937001457 nucleotide binding site [chemical binding]; other site 225937001458 homotetrameric interface [polypeptide binding]; other site 225937001459 putative phosphate binding site [ion binding]; other site 225937001460 putative allosteric binding site; other site 225937001461 PUA domain; Region: PUA; pfam01472 225937001462 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 225937001463 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 225937001464 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 225937001465 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 225937001466 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 225937001467 active site 225937001468 Riboflavin kinase; Region: Flavokinase; smart00904 225937001469 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 225937001470 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 225937001471 active site 225937001472 HIGH motif; other site 225937001473 nucleotide binding site [chemical binding]; other site 225937001474 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 225937001475 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 225937001476 active site 225937001477 KMSKS motif; other site 225937001478 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 225937001479 tRNA binding surface [nucleotide binding]; other site 225937001480 anticodon binding site; other site 225937001481 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 225937001482 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 225937001483 lipoprotein signal peptidase; Provisional; Region: PRK14787 225937001484 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 225937001485 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225937001486 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 225937001487 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 225937001488 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 225937001489 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 225937001490 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 225937001491 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 225937001492 Type II transport protein GspH; Region: GspH; pfam12019 225937001493 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225937001494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937001495 active site 225937001496 phosphorylation site [posttranslational modification] 225937001497 intermolecular recognition site; other site 225937001498 dimerization interface [polypeptide binding]; other site 225937001499 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937001500 Walker A motif; other site 225937001501 ATP binding site [chemical binding]; other site 225937001502 Walker B motif; other site 225937001503 arginine finger; other site 225937001504 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937001505 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 225937001506 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937001507 dimer interface [polypeptide binding]; other site 225937001508 phosphorylation site [posttranslational modification] 225937001509 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 225937001510 ATP binding site [chemical binding]; other site 225937001511 Mg2+ binding site [ion binding]; other site 225937001512 G-X-G motif; other site 225937001513 NAD synthetase; Provisional; Region: PRK13981 225937001514 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 225937001515 multimer interface [polypeptide binding]; other site 225937001516 active site 225937001517 catalytic triad [active] 225937001518 protein interface 1 [polypeptide binding]; other site 225937001519 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 225937001520 homodimer interface [polypeptide binding]; other site 225937001521 NAD binding pocket [chemical binding]; other site 225937001522 ATP binding pocket [chemical binding]; other site 225937001523 Mg binding site [ion binding]; other site 225937001524 active-site loop [active] 225937001525 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 225937001526 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 225937001527 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 225937001528 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 225937001529 RNA binding surface [nucleotide binding]; other site 225937001530 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225937001531 active site 225937001532 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 225937001533 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 225937001534 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 225937001535 Clp amino terminal domain; Region: Clp_N; pfam02861 225937001536 Clp amino terminal domain; Region: Clp_N; pfam02861 225937001537 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937001538 Walker A motif; other site 225937001539 ATP binding site [chemical binding]; other site 225937001540 Walker B motif; other site 225937001541 arginine finger; other site 225937001542 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937001543 Walker A motif; other site 225937001544 ATP binding site [chemical binding]; other site 225937001545 Walker B motif; other site 225937001546 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 225937001547 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225937001548 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 225937001549 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 225937001550 PYR/PP interface [polypeptide binding]; other site 225937001551 dimer interface [polypeptide binding]; other site 225937001552 TPP binding site [chemical binding]; other site 225937001553 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 225937001554 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 225937001555 TPP-binding site [chemical binding]; other site 225937001556 dimer interface [polypeptide binding]; other site 225937001557 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 225937001558 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 225937001559 putative valine binding site [chemical binding]; other site 225937001560 dimer interface [polypeptide binding]; other site 225937001561 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 225937001562 ketol-acid reductoisomerase; Provisional; Region: PRK05479 225937001563 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 225937001564 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 225937001565 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 225937001566 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 225937001567 TMAO/DMSO reductase; Reviewed; Region: PRK05363 225937001568 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 225937001569 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 225937001570 Moco binding site; other site 225937001571 metal coordination site [ion binding]; other site 225937001572 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 225937001573 2-isopropylmalate synthase; Validated; Region: PRK00915 225937001574 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 225937001575 active site 225937001576 catalytic residues [active] 225937001577 metal binding site [ion binding]; metal-binding site 225937001578 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 225937001579 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 225937001580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937001581 Coenzyme A binding pocket [chemical binding]; other site 225937001582 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 225937001583 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 225937001584 G1 box; other site 225937001585 putative GEF interaction site [polypeptide binding]; other site 225937001586 GTP/Mg2+ binding site [chemical binding]; other site 225937001587 Switch I region; other site 225937001588 G2 box; other site 225937001589 G3 box; other site 225937001590 Switch II region; other site 225937001591 G4 box; other site 225937001592 G5 box; other site 225937001593 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 225937001594 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 225937001595 active site 225937001596 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 225937001597 23S rRNA interface [nucleotide binding]; other site 225937001598 L3 interface [polypeptide binding]; other site 225937001599 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 225937001600 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 225937001601 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 225937001602 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 225937001603 [2Fe-2S] cluster binding site [ion binding]; other site 225937001604 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 225937001605 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 225937001606 Qi binding site; other site 225937001607 intrachain domain interface; other site 225937001608 interchain domain interface [polypeptide binding]; other site 225937001609 heme bH binding site [chemical binding]; other site 225937001610 heme bL binding site [chemical binding]; other site 225937001611 Qo binding site; other site 225937001612 interchain domain interface [polypeptide binding]; other site 225937001613 intrachain domain interface; other site 225937001614 Qi binding site; other site 225937001615 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 225937001616 Qo binding site; other site 225937001617 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 225937001618 stringent starvation protein A; Provisional; Region: sspA; PRK09481 225937001619 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225937001620 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 225937001621 dimer interface [polypeptide binding]; other site 225937001622 N-terminal domain interface [polypeptide binding]; other site 225937001623 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 225937001624 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 225937001625 dimer interface [polypeptide binding]; other site 225937001626 active site 225937001627 hypothetical protein; Reviewed; Region: PRK12497 225937001628 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 225937001629 putative ligand binding site [chemical binding]; other site 225937001630 Predicted methyltransferases [General function prediction only]; Region: COG0313 225937001631 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 225937001632 putative SAM binding site [chemical binding]; other site 225937001633 putative homodimer interface [polypeptide binding]; other site 225937001634 cell division protein MraZ; Reviewed; Region: PRK00326 225937001635 MraZ protein; Region: MraZ; pfam02381 225937001636 MraZ protein; Region: MraZ; pfam02381 225937001637 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 225937001638 MraW methylase family; Region: Methyltransf_5; pfam01795 225937001639 Cell division protein FtsL; Region: FtsL; pfam04999 225937001640 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 225937001641 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 225937001642 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 225937001643 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 225937001644 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 225937001645 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225937001646 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 225937001647 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225937001648 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 225937001649 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 225937001650 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225937001651 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225937001652 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 225937001653 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 225937001654 Mg++ binding site [ion binding]; other site 225937001655 putative catalytic motif [active] 225937001656 putative substrate binding site [chemical binding]; other site 225937001657 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 225937001658 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225937001659 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225937001660 cell division protein FtsW; Region: ftsW; TIGR02614 225937001661 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 225937001662 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 225937001663 active site 225937001664 homodimer interface [polypeptide binding]; other site 225937001665 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 225937001666 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 225937001667 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225937001668 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225937001669 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 225937001670 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 225937001671 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225937001672 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 225937001673 Cell division protein FtsQ; Region: FtsQ; pfam03799 225937001674 cell division protein FtsA; Region: ftsA; TIGR01174 225937001675 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 225937001676 nucleotide binding site [chemical binding]; other site 225937001677 Cell division protein FtsA; Region: FtsA; pfam14450 225937001678 cell division protein FtsZ; Validated; Region: PRK09330 225937001679 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 225937001680 nucleotide binding site [chemical binding]; other site 225937001681 SulA interaction site; other site 225937001682 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 225937001683 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 225937001684 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 225937001685 Protein of unknown function (DUF721); Region: DUF721; pfam05258 225937001686 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 225937001687 Peptidase family M23; Region: Peptidase_M23; pfam01551 225937001688 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 225937001689 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; cl17251 225937001690 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 225937001691 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; cl17351 225937001692 nucleotide binding region [chemical binding]; other site 225937001693 ATP-binding site [chemical binding]; other site 225937001694 SEC-C motif; Region: SEC-C; pfam02810 225937001695 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 225937001696 heterotetramer interface [polypeptide binding]; other site 225937001697 active site pocket [active] 225937001698 cleavage site 225937001699 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 225937001700 active site 225937001701 8-oxo-dGMP binding site [chemical binding]; other site 225937001702 nudix motif; other site 225937001703 metal binding site [ion binding]; metal-binding site 225937001704 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 225937001705 active site 225937001706 pyrophosphate binding site [ion binding]; other site 225937001707 thiamine phosphate binding site [chemical binding]; other site 225937001708 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 225937001709 trimer interface [polypeptide binding]; other site 225937001710 dimer interface [polypeptide binding]; other site 225937001711 putative active site [active] 225937001712 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 225937001713 dimerization interface [polypeptide binding]; other site 225937001714 active site 225937001715 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 225937001716 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 225937001717 TPP-binding site; other site 225937001718 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 225937001719 PYR/PP interface [polypeptide binding]; other site 225937001720 dimer interface [polypeptide binding]; other site 225937001721 TPP binding site [chemical binding]; other site 225937001722 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 225937001723 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 225937001724 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 225937001725 substrate binding pocket [chemical binding]; other site 225937001726 chain length determination region; other site 225937001727 substrate-Mg2+ binding site; other site 225937001728 catalytic residues [active] 225937001729 aspartate-rich region 1; other site 225937001730 active site lid residues [active] 225937001731 aspartate-rich region 2; other site 225937001732 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 225937001733 NRDE protein; Region: NRDE; cl01315 225937001734 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225937001735 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 225937001736 thymidylate synthase; Reviewed; Region: thyA; PRK01827 225937001737 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 225937001738 dimerization interface [polypeptide binding]; other site 225937001739 active site 225937001740 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 225937001741 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 225937001742 folate binding site [chemical binding]; other site 225937001743 NADP+ binding site [chemical binding]; other site 225937001744 helicase 45; Provisional; Region: PTZ00424 225937001745 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 225937001746 ATP binding site [chemical binding]; other site 225937001747 Mg++ binding site [ion binding]; other site 225937001748 motif III; other site 225937001749 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 225937001750 nucleotide binding region [chemical binding]; other site 225937001751 ATP-binding site [chemical binding]; other site 225937001752 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 225937001753 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 225937001754 active site 225937001755 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 225937001756 catalytic triad [active] 225937001757 dimer interface [polypeptide binding]; other site 225937001758 haloalkane dehalogenase; Provisional; Region: PRK00870 225937001759 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 225937001760 Domain of unknown function DUF20; Region: UPF0118; pfam01594 225937001761 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 225937001762 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 225937001763 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 225937001764 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 225937001765 ligand binding site [chemical binding]; other site 225937001766 flexible hinge region; other site 225937001767 HDOD domain; Region: HDOD; pfam08668 225937001768 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937001769 Zn2+ binding site [ion binding]; other site 225937001770 Mg2+ binding site [ion binding]; other site 225937001771 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 225937001772 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 225937001773 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 225937001774 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 225937001775 active site 225937001776 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937001777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937001778 metal binding site [ion binding]; metal-binding site 225937001779 active site 225937001780 I-site; other site 225937001781 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937001782 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937001783 metal binding site [ion binding]; metal-binding site 225937001784 active site 225937001785 I-site; other site 225937001786 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 225937001787 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 225937001788 putative catalytic cysteine [active] 225937001789 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 225937001790 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 225937001791 active site 225937001792 (T/H)XGH motif; other site 225937001793 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 225937001794 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 225937001795 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 225937001796 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 225937001797 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 225937001798 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 225937001799 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 225937001800 rare lipoprotein A; Region: rlpA; TIGR00413 225937001801 Sporulation related domain; Region: SPOR; pfam05036 225937001802 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 225937001803 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 225937001804 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 225937001805 Protein of unknown function (DUF493); Region: DUF493; pfam04359 225937001806 lipoate-protein ligase B; Provisional; Region: PRK14342 225937001807 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937001808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937001809 metal binding site [ion binding]; metal-binding site 225937001810 active site 225937001811 I-site; other site 225937001812 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 225937001813 ABC1 family; Region: ABC1; pfam03109 225937001814 Cache domain; Region: Cache_1; pfam02743 225937001815 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937001816 dimerization interface [polypeptide binding]; other site 225937001817 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937001818 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937001819 dimer interface [polypeptide binding]; other site 225937001820 putative CheW interface [polypeptide binding]; other site 225937001821 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 225937001822 GSH binding site [chemical binding]; other site 225937001823 catalytic residues [active] 225937001824 6-phosphofructokinase; Provisional; Region: PRK14072 225937001825 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 225937001826 active site 225937001827 ADP/pyrophosphate binding site [chemical binding]; other site 225937001828 dimerization interface [polypeptide binding]; other site 225937001829 allosteric effector site; other site 225937001830 fructose-1,6-bisphosphate binding site; other site 225937001831 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 225937001832 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 225937001833 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225937001834 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225937001835 aromatic acid decarboxylase; Validated; Region: PRK05920 225937001836 Flavoprotein; Region: Flavoprotein; pfam02441 225937001837 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937001838 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937001839 active site 225937001840 Uncharacterized conserved protein [Function unknown]; Region: COG0397 225937001841 hypothetical protein; Validated; Region: PRK00029 225937001842 ribonuclease R; Region: RNase_R; TIGR02063 225937001843 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 225937001844 RNB domain; Region: RNB; pfam00773 225937001845 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...; Region: S1_RNase_R; cd04471 225937001846 RNA binding site [nucleotide binding]; other site 225937001847 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 225937001848 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 225937001849 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 225937001850 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 225937001851 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 225937001852 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 225937001853 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 225937001854 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 225937001855 replicative DNA helicase; Provisional; Region: PRK05748 225937001856 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 225937001857 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 225937001858 Walker A motif; other site 225937001859 ATP binding site [chemical binding]; other site 225937001860 Walker B motif; other site 225937001861 DNA binding loops [nucleotide binding] 225937001862 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 225937001863 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 225937001864 active site 225937001865 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225937001866 substrate binding site [chemical binding]; other site 225937001867 catalytic residues [active] 225937001868 dimer interface [polypeptide binding]; other site 225937001869 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 225937001870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937001871 NAD(P) binding site [chemical binding]; other site 225937001872 active site 225937001873 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 225937001874 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 225937001875 ligand binding site [chemical binding]; other site 225937001876 flexible hinge region; other site 225937001877 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 225937001878 non-specific DNA interactions [nucleotide binding]; other site 225937001879 DNA binding site [nucleotide binding] 225937001880 sequence specific DNA binding site [nucleotide binding]; other site 225937001881 putative cAMP binding site [chemical binding]; other site 225937001882 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 225937001883 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 225937001884 dimer interface [polypeptide binding]; other site 225937001885 active site 225937001886 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 225937001887 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 225937001888 GTP/Mg2+ binding site [chemical binding]; other site 225937001889 G4 box; other site 225937001890 G5 box; other site 225937001891 G1 box; other site 225937001892 Switch I region; other site 225937001893 G2 box; other site 225937001894 G3 box; other site 225937001895 Switch II region; other site 225937001896 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 225937001897 dimer interface [polypeptide binding]; other site 225937001898 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 225937001899 Protein export membrane protein; Region: SecD_SecF; cl14618 225937001900 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 225937001901 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937001902 dimerization interface [polypeptide binding]; other site 225937001903 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937001904 dimer interface [polypeptide binding]; other site 225937001905 putative CheW interface [polypeptide binding]; other site 225937001906 lipoyl synthase; Provisional; Region: PRK05481 225937001907 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 225937001908 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 225937001909 homodimer interface [polypeptide binding]; other site 225937001910 substrate-cofactor binding pocket; other site 225937001911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937001912 catalytic residue [active] 225937001913 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 225937001914 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 225937001915 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937001916 substrate binding pocket [chemical binding]; other site 225937001917 membrane-bound complex binding site; other site 225937001918 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937001919 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937001920 substrate binding pocket [chemical binding]; other site 225937001921 membrane-bound complex binding site; other site 225937001922 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 225937001923 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 225937001924 Phage Tail Protein X; Region: Phage_tail_X; cl02088 225937001925 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 225937001926 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 225937001927 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 225937001928 Phage tail tube protein FII; Region: Phage_tube; pfam04985 225937001929 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 225937001930 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 225937001931 Phage Tail Collar Domain; Region: Collar; pfam07484 225937001932 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 225937001933 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 225937001934 Phage Tail Collar Domain; Region: Collar; pfam07484 225937001935 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 225937001936 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 225937001937 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 225937001938 baseplate assembly protein; Provisional; Region: J; PHA02568 225937001939 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 225937001940 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 225937001941 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 225937001942 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 225937001943 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 225937001944 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 225937001945 Phage capsid family; Region: Phage_capsid; pfam05065 225937001946 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 225937001947 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 225937001948 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 225937001949 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 225937001950 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 225937001951 amidase catalytic site [active] 225937001952 Zn binding residues [ion binding]; other site 225937001953 substrate binding site [chemical binding]; other site 225937001954 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 225937001955 Endodeoxyribonuclease RusA; Region: RusA; cl01885 225937001956 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225937001957 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 225937001958 non-specific DNA binding site [nucleotide binding]; other site 225937001959 salt bridge; other site 225937001960 sequence-specific DNA binding site [nucleotide binding]; other site 225937001961 Predicted transcriptional regulator [Transcription]; Region: COG2932 225937001962 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 225937001963 Catalytic site [active] 225937001964 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 225937001965 carbon storage regulator; Provisional; Region: PRK01712 225937001966 HNH endonuclease; Region: HNH_3; pfam13392 225937001967 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 225937001968 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 225937001969 active site 225937001970 DNA binding site [nucleotide binding] 225937001971 Int/Topo IB signature motif; other site 225937001972 GTP-binding protein YchF; Reviewed; Region: PRK09601 225937001973 YchF GTPase; Region: YchF; cd01900 225937001974 G1 box; other site 225937001975 GTP/Mg2+ binding site [chemical binding]; other site 225937001976 Switch I region; other site 225937001977 G2 box; other site 225937001978 Switch II region; other site 225937001979 G3 box; other site 225937001980 G4 box; other site 225937001981 G5 box; other site 225937001982 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 225937001983 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 225937001984 putative active site [active] 225937001985 catalytic residue [active] 225937001986 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 225937001987 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 225937001988 5S rRNA interface [nucleotide binding]; other site 225937001989 CTC domain interface [polypeptide binding]; other site 225937001990 L16 interface [polypeptide binding]; other site 225937001991 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 225937001992 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 225937001993 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225937001994 active site 225937001995 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 225937001996 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 225937001997 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 225937001998 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 225937001999 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 225937002000 TPR motif; other site 225937002001 binding surface 225937002002 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 225937002003 TPR motif; other site 225937002004 binding surface 225937002005 TPR repeat; Region: TPR_11; pfam13414 225937002006 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 225937002007 binding surface 225937002008 TPR motif; other site 225937002009 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 225937002010 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 225937002011 tRNA; other site 225937002012 putative tRNA binding site [nucleotide binding]; other site 225937002013 putative NADP binding site [chemical binding]; other site 225937002014 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 225937002015 peptide chain release factor 1; Validated; Region: prfA; PRK00591 225937002016 This domain is found in peptide chain release factors; Region: PCRF; smart00937 225937002017 RF-1 domain; Region: RF-1; pfam00472 225937002018 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 225937002019 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 225937002020 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 225937002021 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 225937002022 ATP binding site [chemical binding]; other site 225937002023 substrate interface [chemical binding]; other site 225937002024 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 225937002025 DNA photolyase; Region: DNA_photolyase; pfam00875 225937002026 Protein of unknown function (DUF432); Region: DUF432; cl01027 225937002027 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225937002028 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225937002029 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 225937002030 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 225937002031 RimK-like ATP-grasp domain; Region: RimK; pfam08443 225937002032 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 225937002033 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 225937002034 putative active site [active] 225937002035 Zn binding site [ion binding]; other site 225937002036 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 225937002037 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 225937002038 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 225937002039 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 225937002040 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 225937002041 DctM-like transporters; Region: DctM; pfam06808 225937002042 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 225937002043 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937002044 dimer interface [polypeptide binding]; other site 225937002045 phosphorylation site [posttranslational modification] 225937002046 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 225937002047 ATP binding site [chemical binding]; other site 225937002048 Mg2+ binding site [ion binding]; other site 225937002049 G-X-G motif; other site 225937002050 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225937002051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937002052 active site 225937002053 phosphorylation site [posttranslational modification] 225937002054 intermolecular recognition site; other site 225937002055 dimerization interface [polypeptide binding]; other site 225937002056 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937002057 Walker A motif; other site 225937002058 ATP binding site [chemical binding]; other site 225937002059 Walker B motif; other site 225937002060 arginine finger; other site 225937002061 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937002062 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 225937002063 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937002064 dimerization interface [polypeptide binding]; other site 225937002065 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937002066 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937002067 dimer interface [polypeptide binding]; other site 225937002068 putative CheW interface [polypeptide binding]; other site 225937002069 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 225937002070 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 225937002071 putative active site [active] 225937002072 PhoH-like protein; Region: PhoH; pfam02562 225937002073 FOG: CBS domain [General function prediction only]; Region: COG0517 225937002074 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 225937002075 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 225937002076 putative lipid binding site [chemical binding]; other site 225937002077 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 225937002078 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 225937002079 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 225937002080 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 225937002081 Switch I; other site 225937002082 Switch II; other site 225937002083 septum formation inhibitor; Reviewed; Region: minC; PRK00339 225937002084 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 225937002085 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 225937002086 HopJ type III effector protein; Region: HopJ; pfam08888 225937002087 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 225937002088 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 225937002089 active site 225937002090 DNA polymerase IV; Validated; Region: PRK02406 225937002091 DNA binding site [nucleotide binding] 225937002092 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; cd01610 225937002093 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 225937002094 active site 225937002095 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937002096 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 225937002097 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 225937002098 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 225937002099 active site 225937002100 catalytic tetrad [active] 225937002101 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 225937002102 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 225937002103 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225937002104 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 225937002105 putative acyl-acceptor binding pocket; other site 225937002106 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 225937002107 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 225937002108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937002109 active site 225937002110 phosphorylation site [posttranslational modification] 225937002111 intermolecular recognition site; other site 225937002112 dimerization interface [polypeptide binding]; other site 225937002113 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937002114 DNA binding site [nucleotide binding] 225937002115 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 225937002116 dimerization interface [polypeptide binding]; other site 225937002117 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937002118 dimer interface [polypeptide binding]; other site 225937002119 phosphorylation site [posttranslational modification] 225937002120 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 225937002121 ATP binding site [chemical binding]; other site 225937002122 Mg2+ binding site [ion binding]; other site 225937002123 G-X-G motif; other site 225937002124 glycerol kinase; Provisional; Region: glpK; PRK00047 225937002125 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 225937002126 N- and C-terminal domain interface [polypeptide binding]; other site 225937002127 active site 225937002128 MgATP binding site [chemical binding]; other site 225937002129 catalytic site [active] 225937002130 metal binding site [ion binding]; metal-binding site 225937002131 glycerol binding site [chemical binding]; other site 225937002132 homotetramer interface [polypeptide binding]; other site 225937002133 homodimer interface [polypeptide binding]; other site 225937002134 FBP binding site [chemical binding]; other site 225937002135 protein IIAGlc interface [polypeptide binding]; other site 225937002136 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 225937002137 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 225937002138 Walker A/P-loop; other site 225937002139 ATP binding site [chemical binding]; other site 225937002140 Q-loop/lid; other site 225937002141 ABC transporter signature motif; other site 225937002142 Walker B; other site 225937002143 D-loop; other site 225937002144 H-loop/switch region; other site 225937002145 TOBE domain; Region: TOBE_2; pfam08402 225937002146 ornithine carbamoyltransferase; Provisional; Region: PRK00779 225937002147 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 225937002148 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 225937002149 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 225937002150 putative GSH binding site [chemical binding]; other site 225937002151 catalytic residues [active] 225937002152 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 225937002153 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 225937002154 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 225937002155 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 225937002156 Domain of unknown function DUF21; Region: DUF21; pfam01595 225937002157 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 225937002158 Transporter associated domain; Region: CorC_HlyC; smart01091 225937002159 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 225937002160 signal recognition particle protein; Provisional; Region: PRK10867 225937002161 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 225937002162 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 225937002163 P loop; other site 225937002164 GTP binding site [chemical binding]; other site 225937002165 Signal peptide binding domain; Region: SRP_SPB; pfam02978 225937002166 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 225937002167 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 225937002168 RimM N-terminal domain; Region: RimM; pfam01782 225937002169 PRC-barrel domain; Region: PRC; pfam05239 225937002170 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 225937002171 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 225937002172 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 225937002173 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 225937002174 active site 225937002175 Int/Topo IB signature motif; other site 225937002176 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 225937002177 dimerization domain [polypeptide binding]; other site 225937002178 dimer interface [polypeptide binding]; other site 225937002179 catalytic residues [active] 225937002180 homoserine dehydrogenase; Provisional; Region: PRK06349 225937002181 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 225937002182 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 225937002183 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 225937002184 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 225937002185 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 225937002186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937002187 catalytic residue [active] 225937002188 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 225937002189 DHH family; Region: DHH; pfam01368 225937002190 DHHA1 domain; Region: DHHA1; pfam02272 225937002191 peptide chain release factor 2; Validated; Region: prfB; PRK00578 225937002192 This domain is found in peptide chain release factors; Region: PCRF; smart00937 225937002193 RF-1 domain; Region: RF-1; pfam00472 225937002194 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 225937002195 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 225937002196 dimer interface [polypeptide binding]; other site 225937002197 putative anticodon binding site; other site 225937002198 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 225937002199 motif 1; other site 225937002200 active site 225937002201 motif 2; other site 225937002202 motif 3; other site 225937002203 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 225937002204 ligand binding site [chemical binding]; other site 225937002205 active site 225937002206 UGI interface [polypeptide binding]; other site 225937002207 catalytic site [active] 225937002208 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 225937002209 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 225937002210 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 225937002211 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 225937002212 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 225937002213 Uncharacterized conserved protein [Function unknown]; Region: COG2938 225937002214 L-aspartate oxidase; Provisional; Region: PRK09077 225937002215 L-aspartate oxidase; Provisional; Region: PRK06175 225937002216 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 225937002217 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 225937002218 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937002219 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937002220 DNA binding residues [nucleotide binding] 225937002221 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 225937002222 anti-sigma E factor; Provisional; Region: rseB; PRK09455 225937002223 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 225937002224 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 225937002225 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 225937002226 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 225937002227 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 225937002228 protein binding site [polypeptide binding]; other site 225937002229 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 225937002230 protein binding site [polypeptide binding]; other site 225937002231 CHASE domain; Region: CHASE; pfam03924 225937002232 PAS domain S-box; Region: sensory_box; TIGR00229 225937002233 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 225937002234 putative active site [active] 225937002235 heme pocket [chemical binding]; other site 225937002236 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937002237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937002238 metal binding site [ion binding]; metal-binding site 225937002239 active site 225937002240 I-site; other site 225937002241 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 225937002242 GTP-binding protein LepA; Provisional; Region: PRK05433 225937002243 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 225937002244 G1 box; other site 225937002245 putative GEF interaction site [polypeptide binding]; other site 225937002246 GTP/Mg2+ binding site [chemical binding]; other site 225937002247 Switch I region; other site 225937002248 G2 box; other site 225937002249 G3 box; other site 225937002250 Switch II region; other site 225937002251 G4 box; other site 225937002252 G5 box; other site 225937002253 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 225937002254 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 225937002255 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 225937002256 signal peptidase I; Provisional; Region: PRK10861 225937002257 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 225937002258 Catalytic site [active] 225937002259 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 225937002260 ribonuclease III; Reviewed; Region: rnc; PRK00102 225937002261 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 225937002262 dimerization interface [polypeptide binding]; other site 225937002263 active site 225937002264 metal binding site [ion binding]; metal-binding site 225937002265 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 225937002266 dsRNA binding site [nucleotide binding]; other site 225937002267 GTPase Era; Reviewed; Region: era; PRK00089 225937002268 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 225937002269 G1 box; other site 225937002270 GTP/Mg2+ binding site [chemical binding]; other site 225937002271 Switch I region; other site 225937002272 G2 box; other site 225937002273 Switch II region; other site 225937002274 G3 box; other site 225937002275 G4 box; other site 225937002276 G5 box; other site 225937002277 KH domain; Region: KH_2; pfam07650 225937002278 Recombination protein O N terminal; Region: RecO_N; pfam11967 225937002279 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 225937002280 Recombination protein O C terminal; Region: RecO_C; pfam02565 225937002281 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...; Region: PNPsynthase; cd00003 225937002282 active site 225937002283 hydrophilic channel; other site 225937002284 dimerization interface [polypeptide binding]; other site 225937002285 catalytic residues [active] 225937002286 active site lid [active] 225937002287 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 225937002288 HAMP domain; Region: HAMP; pfam00672 225937002289 dimerization interface [polypeptide binding]; other site 225937002290 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937002291 dimer interface [polypeptide binding]; other site 225937002292 phosphorylation site [posttranslational modification] 225937002293 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 225937002294 ATP binding site [chemical binding]; other site 225937002295 Mg2+ binding site [ion binding]; other site 225937002296 G-X-G motif; other site 225937002297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937002298 active site 225937002299 phosphorylation site [posttranslational modification] 225937002300 intermolecular recognition site; other site 225937002301 dimerization interface [polypeptide binding]; other site 225937002302 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 225937002303 putative binding surface; other site 225937002304 active site 225937002305 cysteine synthase B; Region: cysM; TIGR01138 225937002306 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 225937002307 dimer interface [polypeptide binding]; other site 225937002308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937002309 catalytic residue [active] 225937002310 TRAM domain; Region: TRAM; pfam01938 225937002311 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 225937002312 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 225937002313 S-adenosylmethionine binding site [chemical binding]; other site 225937002314 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 225937002315 HD domain; Region: HD_4; pfam13328 225937002316 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 225937002317 synthetase active site [active] 225937002318 NTP binding site [chemical binding]; other site 225937002319 metal binding site [ion binding]; metal-binding site 225937002320 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 225937002321 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 225937002322 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 225937002323 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 225937002324 homodimer interface [polypeptide binding]; other site 225937002325 metal binding site [ion binding]; metal-binding site 225937002326 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 225937002327 homodimer interface [polypeptide binding]; other site 225937002328 active site 225937002329 putative chemical substrate binding site [chemical binding]; other site 225937002330 metal binding site [ion binding]; metal-binding site 225937002331 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 225937002332 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 225937002333 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 225937002334 putative deacylase active site [active] 225937002335 HDOD domain; Region: HDOD; pfam08668 225937002336 adenylate kinase; Reviewed; Region: adk; PRK00279 225937002337 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 225937002338 AMP-binding site [chemical binding]; other site 225937002339 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 225937002340 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 225937002341 Glycoprotease family; Region: Peptidase_M22; pfam00814 225937002342 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 225937002343 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 225937002344 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 225937002345 putative acyl-acceptor binding pocket; other site 225937002346 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 225937002347 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 225937002348 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 225937002349 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 225937002350 putative NADH binding site [chemical binding]; other site 225937002351 putative active site [active] 225937002352 nudix motif; other site 225937002353 putative metal binding site [ion binding]; other site 225937002354 glutamate racemase; Provisional; Region: PRK00865 225937002355 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 225937002356 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 225937002357 S-adenosylmethionine binding site [chemical binding]; other site 225937002358 Response regulator receiver domain; Region: Response_reg; pfam00072 225937002359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937002360 active site 225937002361 phosphorylation site [posttranslational modification] 225937002362 intermolecular recognition site; other site 225937002363 dimerization interface [polypeptide binding]; other site 225937002364 PAS domain S-box; Region: sensory_box; TIGR00229 225937002365 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 225937002366 putative active site [active] 225937002367 heme pocket [chemical binding]; other site 225937002368 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937002369 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937002370 metal binding site [ion binding]; metal-binding site 225937002371 active site 225937002372 I-site; other site 225937002373 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 225937002374 HDOD domain; Region: HDOD; pfam08668 225937002375 GAF domain; Region: GAF_3; pfam13492 225937002376 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937002377 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 225937002378 ATP binding site [chemical binding]; other site 225937002379 Mg2+ binding site [ion binding]; other site 225937002380 G-X-G motif; other site 225937002381 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 225937002382 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 225937002383 fatty acyl-CoA reductase; Region: PLN02996 225937002384 fatty acyl CoA reductases (FARs), extended (e) SDRs; Region: FAR-N_SDR_e; cd05236 225937002385 putative NAD(P) binding site [chemical binding]; other site 225937002386 active site 225937002387 putative substrate binding site [chemical binding]; other site 225937002388 C-terminal domain of fatty acyl CoA reductases; Region: FAR_C; cd09071 225937002389 acetyl-CoA synthetase; Provisional; Region: PRK00174 225937002390 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 225937002391 active site 225937002392 CoA binding site [chemical binding]; other site 225937002393 acyl-activating enzyme (AAE) consensus motif; other site 225937002394 AMP binding site [chemical binding]; other site 225937002395 acetate binding site [chemical binding]; other site 225937002396 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225937002397 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937002398 active site 225937002399 phosphorylation site [posttranslational modification] 225937002400 intermolecular recognition site; other site 225937002401 dimerization interface [polypeptide binding]; other site 225937002402 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937002403 DNA binding residues [nucleotide binding] 225937002404 dimerization interface [polypeptide binding]; other site 225937002405 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 225937002406 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 225937002407 NAD binding site [chemical binding]; other site 225937002408 ligand binding site [chemical binding]; other site 225937002409 catalytic site [active] 225937002410 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 225937002411 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 225937002412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937002413 homodimer interface [polypeptide binding]; other site 225937002414 catalytic residue [active] 225937002415 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 225937002416 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 225937002417 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 225937002418 tartrate dehydrogenase; Region: TTC; TIGR02089 225937002419 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 225937002420 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937002421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937002422 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 225937002423 substrate binding pocket [chemical binding]; other site 225937002424 dimerization interface [polypeptide binding]; other site 225937002425 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937002426 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937002427 active site 225937002428 short chain dehydrogenase; Provisional; Region: PRK05650 225937002429 classical (c) SDRs; Region: SDR_c; cd05233 225937002430 NAD(P) binding site [chemical binding]; other site 225937002431 active site 225937002432 Phosphotransferase enzyme family; Region: APH; pfam01636 225937002433 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 225937002434 putative active site [active] 225937002435 putative substrate binding site [chemical binding]; other site 225937002436 ATP binding site [chemical binding]; other site 225937002437 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 225937002438 catalytic core [active] 225937002439 short chain dehydrogenase; Provisional; Region: PRK07035 225937002440 classical (c) SDRs; Region: SDR_c; cd05233 225937002441 NAD(P) binding site [chemical binding]; other site 225937002442 active site 225937002443 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 225937002444 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 225937002445 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 225937002446 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 225937002447 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 225937002448 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 225937002449 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225937002450 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225937002451 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225937002452 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225937002453 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 225937002454 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 225937002455 active site 225937002456 catalytic tetrad [active] 225937002457 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 225937002458 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 225937002459 active site 225937002460 catalytic tetrad [active] 225937002461 Uncharacterized conserved protein [Function unknown]; Region: COG3791 225937002462 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 225937002463 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 225937002464 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 225937002465 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 225937002466 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 225937002467 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 225937002468 ABC-ATPase subunit interface; other site 225937002469 dimer interface [polypeptide binding]; other site 225937002470 putative PBP binding regions; other site 225937002471 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 225937002472 ABC-ATPase subunit interface; other site 225937002473 dimer interface [polypeptide binding]; other site 225937002474 putative PBP binding regions; other site 225937002475 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 225937002476 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 225937002477 siderophore binding site; other site 225937002478 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 225937002479 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 225937002480 Walker A/P-loop; other site 225937002481 ATP binding site [chemical binding]; other site 225937002482 Q-loop/lid; other site 225937002483 ABC transporter signature motif; other site 225937002484 Walker B; other site 225937002485 D-loop; other site 225937002486 H-loop/switch region; other site 225937002487 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 225937002488 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225937002489 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937002490 Walker A/P-loop; other site 225937002491 ATP binding site [chemical binding]; other site 225937002492 Q-loop/lid; other site 225937002493 ABC transporter signature motif; other site 225937002494 Walker B; other site 225937002495 D-loop; other site 225937002496 H-loop/switch region; other site 225937002497 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 225937002498 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 225937002499 catalytic core [active] 225937002500 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 225937002501 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 225937002502 PhnA protein; Region: PhnA; pfam03831 225937002503 Protein of unknown function (DUF533); Region: DUF533; pfam04391 225937002504 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 225937002505 putative metal binding site [ion binding]; other site 225937002506 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937002507 metal binding site [ion binding]; metal-binding site 225937002508 active site 225937002509 I-site; other site 225937002510 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 225937002511 Protein of unknown function (DUF461); Region: DUF461; pfam04314 225937002512 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 225937002513 C factor cell-cell signaling protein; Provisional; Region: PRK09009 225937002514 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 225937002515 NADP binding site [chemical binding]; other site 225937002516 homodimer interface [polypeptide binding]; other site 225937002517 active site 225937002518 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937002519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937002520 metal binding site [ion binding]; metal-binding site 225937002521 active site 225937002522 I-site; other site 225937002523 Predicted integral membrane protein [Function unknown]; Region: COG5615 225937002524 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 225937002525 dimer interaction site [polypeptide binding]; other site 225937002526 substrate-binding tunnel; other site 225937002527 active site 225937002528 catalytic site [active] 225937002529 substrate binding site [chemical binding]; other site 225937002530 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 225937002531 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 225937002532 ATP binding site [chemical binding]; other site 225937002533 Peptidase family M23; Region: Peptidase_M23; pfam01551 225937002534 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 225937002535 Ligand Binding Site [chemical binding]; other site 225937002536 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 225937002537 Na2 binding site [ion binding]; other site 225937002538 putative substrate binding site 1 [chemical binding]; other site 225937002539 Na binding site 1 [ion binding]; other site 225937002540 putative substrate binding site 2 [chemical binding]; other site 225937002541 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 225937002542 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 225937002543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937002544 homodimer interface [polypeptide binding]; other site 225937002545 catalytic residue [active] 225937002546 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 225937002547 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 225937002548 dimer interface [polypeptide binding]; other site 225937002549 PYR/PP interface [polypeptide binding]; other site 225937002550 TPP binding site [chemical binding]; other site 225937002551 substrate binding site [chemical binding]; other site 225937002552 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 225937002553 TPP-binding site [chemical binding]; other site 225937002554 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 225937002555 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 225937002556 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 225937002557 putative DNA binding site [nucleotide binding]; other site 225937002558 putative Zn2+ binding site [ion binding]; other site 225937002559 AsnC family; Region: AsnC_trans_reg; pfam01037 225937002560 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...; Region: CSP_CDS; cd04458 225937002561 DNA-binding site [nucleotide binding]; DNA binding site 225937002562 RNA-binding motif; other site 225937002563 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 225937002564 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937002565 metal binding site [ion binding]; metal-binding site 225937002566 active site 225937002567 I-site; other site 225937002568 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 225937002569 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 225937002570 enoyl-CoA hydratase; Provisional; Region: PRK06142 225937002571 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 225937002572 substrate binding site [chemical binding]; other site 225937002573 oxyanion hole (OAH) forming residues; other site 225937002574 trimer interface [polypeptide binding]; other site 225937002575 CAAX protease self-immunity; Region: Abi; pfam02517 225937002576 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 225937002577 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 225937002578 putative active site pocket [active] 225937002579 dimerization interface [polypeptide binding]; other site 225937002580 putative catalytic residue [active] 225937002581 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 225937002582 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937002583 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 225937002584 dimerization interface [polypeptide binding]; other site 225937002585 Lysine efflux permease [General function prediction only]; Region: COG1279 225937002586 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 225937002587 active site 2 [active] 225937002588 active site 1 [active] 225937002589 NlpC/P60 family; Region: NLPC_P60; pfam00877 225937002590 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 225937002591 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 225937002592 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 225937002593 intracellular protease, PfpI family; Region: PfpI; TIGR01382 225937002594 conserved cys residue [active] 225937002595 Uncharacterized conserved protein [Function unknown]; Region: COG2135 225937002596 hypothetical protein; Provisional; Region: PRK09256 225937002597 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 225937002598 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 225937002599 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 225937002600 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 225937002601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937002602 NAD(P) binding site [chemical binding]; other site 225937002603 active site 225937002604 oxidoreductase; Validated; Region: PRK05717 225937002605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937002606 NAD(P) binding site [chemical binding]; other site 225937002607 active site 225937002608 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 225937002609 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 225937002610 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 225937002611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937002612 Coenzyme A binding pocket [chemical binding]; other site 225937002613 Predicted amidohydrolase [General function prediction only]; Region: COG0388 225937002614 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 225937002615 putative active site [active] 225937002616 catalytic triad [active] 225937002617 putative dimer interface [polypeptide binding]; other site 225937002618 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 225937002619 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 225937002620 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 225937002621 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 225937002622 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 225937002623 RNA binding surface [nucleotide binding]; other site 225937002624 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 225937002625 probable active site [active] 225937002626 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 225937002627 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 225937002628 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225937002629 Methyltransferase domain; Region: Methyltransf_11; pfam08241 225937002630 S-adenosylmethionine binding site [chemical binding]; other site 225937002631 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_C39A; cd02549 225937002632 putative active site [active] 225937002633 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 225937002634 TPR motif; other site 225937002635 binding surface 225937002636 TPR repeat; Region: TPR_11; pfam13414 225937002637 Carboxysome Shell Carbonic Anhydrase; Region: CsoSCA; cl07510 225937002638 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 225937002639 putative active site [active] 225937002640 putative catalytic site [active] 225937002641 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 225937002642 PLD-like domain; Region: PLDc_2; pfam13091 225937002643 putative active site [active] 225937002644 putative catalytic site [active] 225937002645 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 225937002646 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 225937002647 active site 225937002648 ATP binding site [chemical binding]; other site 225937002649 substrate binding site [chemical binding]; other site 225937002650 activation loop (A-loop); other site 225937002651 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 225937002652 active site 225937002653 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 225937002654 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 225937002655 phosphopeptide binding site; other site 225937002656 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 225937002657 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 225937002658 catalytic triad [active] 225937002659 hypothetical protein; Provisional; Region: PRK12378 225937002660 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 225937002661 Sel1-like repeats; Region: SEL1; smart00671 225937002662 Sel1-like repeats; Region: SEL1; smart00671 225937002663 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 225937002664 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225937002665 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 225937002666 putative hydrophobic ligand binding site [chemical binding]; other site 225937002667 protein interface [polypeptide binding]; other site 225937002668 gate; other site 225937002669 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 225937002670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937002671 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937002672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937002673 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 225937002674 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 225937002675 tetrameric interface [polypeptide binding]; other site 225937002676 NAD binding site [chemical binding]; other site 225937002677 catalytic residues [active] 225937002678 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937002679 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937002680 active site 225937002681 enoyl-CoA hydratase; Provisional; Region: PRK09076 225937002682 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 225937002683 substrate binding site [chemical binding]; other site 225937002684 oxyanion hole (OAH) forming residues; other site 225937002685 trimer interface [polypeptide binding]; other site 225937002686 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 225937002687 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 225937002688 substrate binding site [chemical binding]; other site 225937002689 oxyanion hole (OAH) forming residues; other site 225937002690 trimer interface [polypeptide binding]; other site 225937002691 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 225937002692 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 225937002693 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 225937002694 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 225937002695 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 225937002696 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 225937002697 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 225937002698 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 225937002699 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 225937002700 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225937002701 Uncharacterized conserved protein [Function unknown]; Region: COG1262 225937002702 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 225937002703 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 225937002704 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 225937002705 Domain of unknown function DUF20; Region: UPF0118; pfam01594 225937002706 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 225937002707 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 225937002708 NAD(P) binding site [chemical binding]; other site 225937002709 Proline racemase; Region: Pro_racemase; pfam05544 225937002710 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 225937002711 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 225937002712 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225937002713 acyl-activating enzyme (AAE) consensus motif; other site 225937002714 AMP binding site [chemical binding]; other site 225937002715 active site 225937002716 CoA binding site [chemical binding]; other site 225937002717 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 225937002718 CoenzymeA binding site [chemical binding]; other site 225937002719 subunit interaction site [polypeptide binding]; other site 225937002720 PHB binding site; other site 225937002721 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225937002722 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 225937002723 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 225937002724 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 225937002725 Walker A/P-loop; other site 225937002726 ATP binding site [chemical binding]; other site 225937002727 Q-loop/lid; other site 225937002728 ABC transporter signature motif; other site 225937002729 Walker B; other site 225937002730 D-loop; other site 225937002731 H-loop/switch region; other site 225937002732 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 225937002733 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 225937002734 Walker A/P-loop; other site 225937002735 ATP binding site [chemical binding]; other site 225937002736 Q-loop/lid; other site 225937002737 ABC transporter signature motif; other site 225937002738 Walker B; other site 225937002739 D-loop; other site 225937002740 H-loop/switch region; other site 225937002741 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225937002742 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 225937002743 putative ligand binding site [chemical binding]; other site 225937002744 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 225937002745 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 225937002746 TM-ABC transporter signature motif; other site 225937002747 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 225937002748 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 225937002749 TM-ABC transporter signature motif; other site 225937002750 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937002751 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937002752 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 225937002753 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 225937002754 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 225937002755 putative active site [active] 225937002756 metal binding site [ion binding]; metal-binding site 225937002757 DoxX; Region: DoxX; pfam07681 225937002758 transcriptional regulator; Provisional; Region: PRK10632 225937002759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937002760 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 225937002761 putative effector binding pocket; other site 225937002762 dimerization interface [polypeptide binding]; other site 225937002763 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 225937002764 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937002765 dimer interface [polypeptide binding]; other site 225937002766 conserved gate region; other site 225937002767 putative PBP binding loops; other site 225937002768 ABC-ATPase subunit interface; other site 225937002769 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 225937002770 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937002771 dimer interface [polypeptide binding]; other site 225937002772 conserved gate region; other site 225937002773 putative PBP binding loops; other site 225937002774 ABC-ATPase subunit interface; other site 225937002775 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 225937002776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937002777 Walker A/P-loop; other site 225937002778 ATP binding site [chemical binding]; other site 225937002779 Q-loop/lid; other site 225937002780 ABC transporter signature motif; other site 225937002781 Walker B; other site 225937002782 D-loop; other site 225937002783 H-loop/switch region; other site 225937002784 TOBE domain; Region: TOBE_2; pfam08402 225937002785 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 225937002786 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 225937002787 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 225937002788 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 225937002789 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 225937002790 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 225937002791 NAD(P) binding site [chemical binding]; other site 225937002792 catalytic residues [active] 225937002793 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 225937002794 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 225937002795 PAS domain; Region: PAS_9; pfam13426 225937002796 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 225937002797 putative active site [active] 225937002798 heme pocket [chemical binding]; other site 225937002799 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225937002800 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 225937002801 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937002802 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937002803 metal binding site [ion binding]; metal-binding site 225937002804 active site 225937002805 I-site; other site 225937002806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 225937002807 Anti-sigma-K factor rskA; Region: RskA; pfam10099 225937002808 RNA polymerase sigma factor; Provisional; Region: PRK12514 225937002809 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937002810 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937002811 DNA binding residues [nucleotide binding] 225937002812 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937002813 Helix-turn-helix domain; Region: HTH_18; pfam12833 225937002814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937002815 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 225937002816 hypothetical protein; Validated; Region: PRK07586 225937002817 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 225937002818 PYR/PP interface [polypeptide binding]; other site 225937002819 dimer interface [polypeptide binding]; other site 225937002820 TPP binding site [chemical binding]; other site 225937002821 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 225937002822 TPP-binding site [chemical binding]; other site 225937002823 dimer interface [polypeptide binding]; other site 225937002824 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 225937002825 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 225937002826 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 225937002827 active site 225937002828 catalytic triad [active] 225937002829 oxyanion hole [active] 225937002830 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 225937002831 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 225937002832 NIPSNAP; Region: NIPSNAP; pfam07978 225937002833 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225937002834 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225937002835 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937002836 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225937002837 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 225937002838 MOSC domain; Region: MOSC; pfam03473 225937002839 Nucleotidyl transferase of unknown function (DUF2204); Region: DUF2204; cl17690 225937002840 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 225937002841 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 225937002842 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 225937002843 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 225937002844 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225937002845 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 225937002846 active site 225937002847 metal binding site [ion binding]; metal-binding site 225937002848 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937002849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937002850 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 225937002851 dimerization interface [polypeptide binding]; other site 225937002852 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 225937002853 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 225937002854 Beta-lactamase; Region: Beta-lactamase; pfam00144 225937002855 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 225937002856 putative active site [active] 225937002857 Zn binding site [ion binding]; other site 225937002858 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937002859 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 225937002860 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 225937002861 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 225937002862 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937002863 dimer interface [polypeptide binding]; other site 225937002864 conserved gate region; other site 225937002865 putative PBP binding loops; other site 225937002866 ABC-ATPase subunit interface; other site 225937002867 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 225937002868 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 225937002869 Walker A/P-loop; other site 225937002870 ATP binding site [chemical binding]; other site 225937002871 Q-loop/lid; other site 225937002872 ABC transporter signature motif; other site 225937002873 Walker B; other site 225937002874 D-loop; other site 225937002875 H-loop/switch region; other site 225937002876 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 225937002877 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 225937002878 ABC-ATPase subunit interface; other site 225937002879 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 225937002880 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937002881 putative substrate translocation pore; other site 225937002882 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 225937002883 AMP-binding domain protein; Validated; Region: PRK08315 225937002884 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225937002885 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 225937002886 acyl-activating enzyme (AAE) consensus motif; other site 225937002887 acyl-activating enzyme (AAE) consensus motif; other site 225937002888 putative AMP binding site [chemical binding]; other site 225937002889 putative active site [active] 225937002890 putative CoA binding site [chemical binding]; other site 225937002891 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 225937002892 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 225937002893 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 225937002894 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 225937002895 active site 225937002896 catalytic residues [active] 225937002897 metal binding site [ion binding]; metal-binding site 225937002898 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 225937002899 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225937002900 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225937002901 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 225937002902 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 225937002903 carboxyltransferase (CT) interaction site; other site 225937002904 biotinylation site [posttranslational modification]; other site 225937002905 enoyl-CoA hydratase; Provisional; Region: PRK05995 225937002906 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 225937002907 substrate binding site [chemical binding]; other site 225937002908 oxyanion hole (OAH) forming residues; other site 225937002909 trimer interface [polypeptide binding]; other site 225937002910 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 225937002911 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 225937002912 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 225937002913 isovaleryl-CoA dehydrogenase; Region: PLN02519 225937002914 substrate binding site [chemical binding]; other site 225937002915 FAD binding site [chemical binding]; other site 225937002916 catalytic base [active] 225937002917 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 225937002918 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 225937002919 DNA binding residues [nucleotide binding] 225937002920 putative dimer interface [polypeptide binding]; other site 225937002921 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 225937002922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937002923 NAD(P) binding site [chemical binding]; other site 225937002924 active site 225937002925 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937002926 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937002927 active site 225937002928 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 225937002929 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 225937002930 dimer interface [polypeptide binding]; other site 225937002931 active site 225937002932 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 225937002933 Na2 binding site [ion binding]; other site 225937002934 putative substrate binding site 1 [chemical binding]; other site 225937002935 Na binding site 1 [ion binding]; other site 225937002936 putative substrate binding site 2 [chemical binding]; other site 225937002937 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 225937002938 PAS domain; Region: PAS_9; pfam13426 225937002939 putative active site [active] 225937002940 heme pocket [chemical binding]; other site 225937002941 PAS domain S-box; Region: sensory_box; TIGR00229 225937002942 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 225937002943 putative active site [active] 225937002944 heme pocket [chemical binding]; other site 225937002945 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937002946 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 225937002947 Walker A motif; other site 225937002948 ATP binding site [chemical binding]; other site 225937002949 Walker B motif; other site 225937002950 arginine finger; other site 225937002951 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 225937002952 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 225937002953 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 225937002954 NMT1-like family; Region: NMT1_2; pfam13379 225937002955 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 225937002956 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937002957 dimer interface [polypeptide binding]; other site 225937002958 conserved gate region; other site 225937002959 putative PBP binding loops; other site 225937002960 ABC-ATPase subunit interface; other site 225937002961 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 225937002962 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 225937002963 Walker A/P-loop; other site 225937002964 ATP binding site [chemical binding]; other site 225937002965 Q-loop/lid; other site 225937002966 ABC transporter signature motif; other site 225937002967 Walker B; other site 225937002968 D-loop; other site 225937002969 H-loop/switch region; other site 225937002970 cyanate hydratase; Validated; Region: PRK02866 225937002971 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 225937002972 oligomer interface [polypeptide binding]; other site 225937002973 active site 225937002974 ACT domain; Region: ACT_5; pfam13710 225937002975 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 225937002976 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 225937002977 PYR/PP interface [polypeptide binding]; other site 225937002978 dimer interface [polypeptide binding]; other site 225937002979 TPP binding site [chemical binding]; other site 225937002980 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 225937002981 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 225937002982 TPP-binding site [chemical binding]; other site 225937002983 dimer interface [polypeptide binding]; other site 225937002984 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937002985 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225937002986 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937002987 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225937002988 Protein export membrane protein; Region: SecD_SecF; cl14618 225937002989 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937002990 dimerization interface [polypeptide binding]; other site 225937002991 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937002992 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937002993 dimer interface [polypeptide binding]; other site 225937002994 putative CheW interface [polypeptide binding]; other site 225937002995 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 225937002996 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 225937002997 probable active site [active] 225937002998 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225937002999 GAF domain; Region: GAF; pfam01590 225937003000 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937003001 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937003002 metal binding site [ion binding]; metal-binding site 225937003003 active site 225937003004 I-site; other site 225937003005 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 225937003006 amidase; Provisional; Region: PRK07869 225937003007 Amidase; Region: Amidase; cl11426 225937003008 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 225937003009 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 225937003010 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 225937003011 putative metal binding site [ion binding]; other site 225937003012 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 225937003013 HSP70 interaction site [polypeptide binding]; other site 225937003014 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 225937003015 GAF domain; Region: GAF_2; pfam13185 225937003016 GAF domain; Region: GAF_3; pfam13492 225937003017 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 225937003018 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937003019 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 225937003020 Predicted membrane protein [Function unknown]; Region: COG3174 225937003021 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 225937003022 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 225937003023 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 225937003024 Sulfate transporter family; Region: Sulfate_transp; pfam00916 225937003025 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 225937003026 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 225937003027 Ligand Binding Site [chemical binding]; other site 225937003028 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 225937003029 Ligand Binding Site [chemical binding]; other site 225937003030 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 225937003031 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 225937003032 active site 225937003033 nucleophile elbow; other site 225937003034 HI0933-like protein; Region: HI0933_like; pfam03486 225937003035 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 225937003036 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 225937003037 putative NAD(P) binding site [chemical binding]; other site 225937003038 putative substrate binding site [chemical binding]; other site 225937003039 catalytic Zn binding site [ion binding]; other site 225937003040 structural Zn binding site [ion binding]; other site 225937003041 dimer interface [polypeptide binding]; other site 225937003042 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 225937003043 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 225937003044 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937003045 DNA-binding site [nucleotide binding]; DNA binding site 225937003046 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 225937003047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937003048 homodimer interface [polypeptide binding]; other site 225937003049 catalytic residue [active] 225937003050 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 225937003051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937003052 active site 225937003053 phosphorylation site [posttranslational modification] 225937003054 intermolecular recognition site; other site 225937003055 dimerization interface [polypeptide binding]; other site 225937003056 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937003057 DNA binding residues [nucleotide binding] 225937003058 PAS domain S-box; Region: sensory_box; TIGR00229 225937003059 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 225937003060 putative active site [active] 225937003061 heme pocket [chemical binding]; other site 225937003062 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937003063 dimer interface [polypeptide binding]; other site 225937003064 phosphorylation site [posttranslational modification] 225937003065 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 225937003066 ATP binding site [chemical binding]; other site 225937003067 Mg2+ binding site [ion binding]; other site 225937003068 G-X-G motif; other site 225937003069 acyl-CoA synthetase; Validated; Region: PRK08162 225937003070 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 225937003071 acyl-activating enzyme (AAE) consensus motif; other site 225937003072 putative active site [active] 225937003073 AMP binding site [chemical binding]; other site 225937003074 putative CoA binding site [chemical binding]; other site 225937003075 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 225937003076 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 225937003077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 225937003078 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 225937003079 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 225937003080 Ferredoxin [Energy production and conversion]; Region: COG1146 225937003081 4Fe-4S binding domain; Region: Fer4; cl02805 225937003082 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 225937003083 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 225937003084 MutS domain I; Region: MutS_I; pfam01624 225937003085 MutS domain II; Region: MutS_II; pfam05188 225937003086 MutS domain III; Region: MutS_III; pfam05192 225937003087 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 225937003088 Walker A/P-loop; other site 225937003089 ATP binding site [chemical binding]; other site 225937003090 Q-loop/lid; other site 225937003091 ABC transporter signature motif; other site 225937003092 Walker B; other site 225937003093 D-loop; other site 225937003094 H-loop/switch region; other site 225937003095 Competence-damaged protein; Region: CinA; cl00666 225937003096 recombinase A; Provisional; Region: recA; PRK09354 225937003097 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 225937003098 hexamer interface [polypeptide binding]; other site 225937003099 Walker A motif; other site 225937003100 ATP binding site [chemical binding]; other site 225937003101 Walker B motif; other site 225937003102 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 225937003103 PilZ domain; Region: PilZ; pfam07238 225937003104 AAA domain; Region: AAA_32; pfam13654 225937003105 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 225937003106 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 225937003107 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 225937003108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937003109 active site 225937003110 phosphorylation site [posttranslational modification] 225937003111 intermolecular recognition site; other site 225937003112 dimerization interface [polypeptide binding]; other site 225937003113 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937003114 DNA binding residues [nucleotide binding] 225937003115 dimerization interface [polypeptide binding]; other site 225937003116 Response regulator receiver domain; Region: Response_reg; pfam00072 225937003117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937003118 active site 225937003119 phosphorylation site [posttranslational modification] 225937003120 intermolecular recognition site; other site 225937003121 dimerization interface [polypeptide binding]; other site 225937003122 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 225937003123 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 225937003124 putative active site [active] 225937003125 heme pocket [chemical binding]; other site 225937003126 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937003127 dimer interface [polypeptide binding]; other site 225937003128 phosphorylation site [posttranslational modification] 225937003129 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 225937003130 ATP binding site [chemical binding]; other site 225937003131 Mg2+ binding site [ion binding]; other site 225937003132 G-X-G motif; other site 225937003133 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 225937003134 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 225937003135 active site 2 [active] 225937003136 active site 1 [active] 225937003137 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937003138 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 225937003139 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937003140 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937003141 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937003142 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937003143 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225937003144 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 225937003145 active site 225937003146 FMN binding site [chemical binding]; other site 225937003147 2,4-decadienoyl-CoA binding site; other site 225937003148 catalytic residue [active] 225937003149 4Fe-4S cluster binding site [ion binding]; other site 225937003150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 225937003151 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937003152 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 225937003153 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 225937003154 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225937003155 active site 225937003156 metal binding site [ion binding]; metal-binding site 225937003157 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 225937003158 Rhomboid family; Region: Rhomboid; pfam01694 225937003159 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 225937003160 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 225937003161 aminopeptidase N; Provisional; Region: pepN; PRK14015 225937003162 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 225937003163 active site 225937003164 Zn binding site [ion binding]; other site 225937003165 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 225937003166 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 225937003167 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 225937003168 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 225937003169 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 225937003170 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 225937003171 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 225937003172 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 225937003173 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 225937003174 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 225937003175 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 225937003176 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 225937003177 active site 225937003178 dimer interface [polypeptide binding]; other site 225937003179 motif 1; other site 225937003180 motif 2; other site 225937003181 motif 3; other site 225937003182 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 225937003183 anticodon binding site; other site 225937003184 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 225937003185 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 225937003186 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 225937003187 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 225937003188 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 225937003189 23S rRNA binding site [nucleotide binding]; other site 225937003190 L21 binding site [polypeptide binding]; other site 225937003191 L13 binding site [polypeptide binding]; other site 225937003192 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 225937003193 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 225937003194 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 225937003195 dimer interface [polypeptide binding]; other site 225937003196 motif 1; other site 225937003197 active site 225937003198 motif 2; other site 225937003199 motif 3; other site 225937003200 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 225937003201 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 225937003202 putative tRNA-binding site [nucleotide binding]; other site 225937003203 B3/4 domain; Region: B3_4; pfam03483 225937003204 tRNA synthetase B5 domain; Region: B5; smart00874 225937003205 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 225937003206 dimer interface [polypeptide binding]; other site 225937003207 motif 1; other site 225937003208 motif 3; other site 225937003209 motif 2; other site 225937003210 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 225937003211 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 225937003212 IHF dimer interface [polypeptide binding]; other site 225937003213 IHF - DNA interface [nucleotide binding]; other site 225937003214 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 225937003215 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 225937003216 DNA binding residues [nucleotide binding] 225937003217 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 225937003218 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 225937003219 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 225937003220 ligand binding site [chemical binding]; other site 225937003221 flexible hinge region; other site 225937003222 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 225937003223 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 225937003224 active site 225937003225 Int/Topo IB signature motif; other site 225937003226 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 225937003227 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 225937003228 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 225937003229 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 225937003230 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 225937003231 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 225937003232 Transposase; Region: HTH_Tnp_1; pfam01527 225937003233 HTH-like domain; Region: HTH_21; pfam13276 225937003234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 225937003235 Integrase core domain; Region: rve; pfam00665 225937003236 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 225937003237 benzoate transporter; Region: benE; TIGR00843 225937003238 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 225937003239 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 225937003240 Walker A/P-loop; other site 225937003241 ATP binding site [chemical binding]; other site 225937003242 Q-loop/lid; other site 225937003243 ABC transporter signature motif; other site 225937003244 Walker B; other site 225937003245 D-loop; other site 225937003246 H-loop/switch region; other site 225937003247 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 225937003248 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 225937003249 Walker A/P-loop; other site 225937003250 ATP binding site [chemical binding]; other site 225937003251 Q-loop/lid; other site 225937003252 ABC transporter signature motif; other site 225937003253 Walker B; other site 225937003254 D-loop; other site 225937003255 H-loop/switch region; other site 225937003256 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 225937003257 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 225937003258 TM-ABC transporter signature motif; other site 225937003259 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 225937003260 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 225937003261 TM-ABC transporter signature motif; other site 225937003262 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225937003263 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 225937003264 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225937003265 Transposase; Region: HTH_Tnp_1; pfam01527 225937003266 putative transposase OrfB; Reviewed; Region: PHA02517 225937003267 HTH-like domain; Region: HTH_21; pfam13276 225937003268 Integrase core domain; Region: rve; pfam00665 225937003269 Integrase core domain; Region: rve_2; pfam13333 225937003270 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 225937003271 Helix-turn-helix domain; Region: HTH_18; pfam12833 225937003272 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 225937003273 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 225937003274 iron-sulfur cluster [ion binding]; other site 225937003275 [2Fe-2S] cluster binding site [ion binding]; other site 225937003276 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 225937003277 putative alpha subunit interface [polypeptide binding]; other site 225937003278 putative active site [active] 225937003279 putative substrate binding site [chemical binding]; other site 225937003280 Fe binding site [ion binding]; other site 225937003281 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 225937003282 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 225937003283 catalytic loop [active] 225937003284 iron binding site [ion binding]; other site 225937003285 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 225937003286 FAD binding pocket [chemical binding]; other site 225937003287 FAD binding motif [chemical binding]; other site 225937003288 phosphate binding motif [ion binding]; other site 225937003289 beta-alpha-beta structure motif; other site 225937003290 NAD binding pocket [chemical binding]; other site 225937003291 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 225937003292 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 225937003293 putative NAD(P) binding site [chemical binding]; other site 225937003294 active site 225937003295 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 225937003296 iron binding site [ion binding]; other site 225937003297 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 225937003298 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 225937003299 active site 225937003300 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 225937003301 tetramer interface [polypeptide binding]; other site 225937003302 active site 225937003303 Fe binding site [ion binding]; other site 225937003304 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 225937003305 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 225937003306 NAD binding site [chemical binding]; other site 225937003307 catalytic residues [active] 225937003308 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 225937003309 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 225937003310 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 225937003311 acetaldehyde dehydrogenase; Validated; Region: PRK08300 225937003312 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 225937003313 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 225937003314 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 225937003315 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 225937003316 active site 225937003317 catalytic residues [active] 225937003318 metal binding site [ion binding]; metal-binding site 225937003319 DmpG-like communication domain; Region: DmpG_comm; pfam07836 225937003320 4-oxalocrotonate decarboxylase; Region: catechol_dmpH; TIGR03218 225937003321 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 225937003322 active site 1 [active] 225937003323 dimer interface [polypeptide binding]; other site 225937003324 hexamer interface [polypeptide binding]; other site 225937003325 active site 2 [active] 225937003326 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225937003327 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937003328 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225937003329 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937003330 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 225937003331 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 225937003332 catalytic site [active] 225937003333 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 225937003334 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 225937003335 CoenzymeA binding site [chemical binding]; other site 225937003336 subunit interaction site [polypeptide binding]; other site 225937003337 PHB binding site; other site 225937003338 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 225937003339 CoenzymeA binding site [chemical binding]; other site 225937003340 subunit interaction site [polypeptide binding]; other site 225937003341 PHB binding site; other site 225937003342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937003343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937003344 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 225937003345 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 225937003346 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225937003347 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 225937003348 dimer interface [polypeptide binding]; other site 225937003349 N-terminal domain interface [polypeptide binding]; other site 225937003350 active site 225937003351 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 225937003352 catalytic core [active] 225937003353 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 225937003354 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 225937003355 active site 225937003356 FMN binding site [chemical binding]; other site 225937003357 substrate binding site [chemical binding]; other site 225937003358 3Fe-4S cluster binding site [ion binding]; other site 225937003359 BCCT family transporter; Region: BCCT; pfam02028 225937003360 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 225937003361 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 225937003362 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 225937003363 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 225937003364 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 225937003365 DNA recombination protein RmuC; Provisional; Region: PRK10361 225937003366 RmuC family; Region: RmuC; pfam02646 225937003367 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937003368 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937003369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937003370 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 225937003371 CoA-transferase family III; Region: CoA_transf_3; pfam02515 225937003372 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 225937003373 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 225937003374 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 225937003375 active site 225937003376 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 225937003377 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 225937003378 enoyl-CoA hydratase; Provisional; Region: PRK06688 225937003379 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 225937003380 substrate binding site [chemical binding]; other site 225937003381 oxyanion hole (OAH) forming residues; other site 225937003382 trimer interface [polypeptide binding]; other site 225937003383 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 225937003384 Fumarase C-terminus; Region: Fumerase_C; pfam05683 225937003385 Uncharacterized conserved protein [Function unknown]; Region: COG0397 225937003386 hypothetical protein; Validated; Region: PRK00029 225937003387 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 triphosphates...; Region: NK; cl17190 225937003388 active site 225937003389 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 225937003390 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 225937003391 active site 225937003392 motif I; other site 225937003393 motif II; other site 225937003394 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 225937003395 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 225937003396 trehalose synthase; Region: treS_nterm; TIGR02456 225937003397 active site 225937003398 homodimer interface [polypeptide binding]; other site 225937003399 catalytic site [active] 225937003400 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 225937003401 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 225937003402 NAD(P) binding site [chemical binding]; other site 225937003403 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 225937003404 Prostaglandin dehydrogenases; Region: PGDH; cd05288 225937003405 NAD(P) binding site [chemical binding]; other site 225937003406 substrate binding site [chemical binding]; other site 225937003407 dimer interface [polypeptide binding]; other site 225937003408 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 225937003409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 225937003410 AAA domain; Region: AAA_33; pfam13671 225937003411 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 225937003412 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 225937003413 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225937003414 dimer interface [polypeptide binding]; other site 225937003415 active site 225937003416 glutathione binding site [chemical binding]; other site 225937003417 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 225937003418 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...; Region: CSP_CDS; cd04458 225937003419 DNA-binding site [nucleotide binding]; DNA binding site 225937003420 RNA-binding motif; other site 225937003421 SlyX; Region: SlyX; pfam04102 225937003422 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 225937003423 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 225937003424 metal binding site [ion binding]; metal-binding site 225937003425 dimer interface [polypeptide binding]; other site 225937003426 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 225937003427 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 225937003428 putative trimer interface [polypeptide binding]; other site 225937003429 putative CoA binding site [chemical binding]; other site 225937003430 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 225937003431 ArsC family; Region: ArsC; pfam03960 225937003432 putative catalytic residues [active] 225937003433 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 225937003434 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 225937003435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937003436 homodimer interface [polypeptide binding]; other site 225937003437 catalytic residue [active] 225937003438 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 225937003439 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225937003440 metal binding triad; other site 225937003441 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 225937003442 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937003443 Zn2+ binding site [ion binding]; other site 225937003444 Mg2+ binding site [ion binding]; other site 225937003445 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 225937003446 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 225937003447 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 225937003448 active site 225937003449 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 225937003450 rRNA interaction site [nucleotide binding]; other site 225937003451 S8 interaction site; other site 225937003452 putative laminin-1 binding site; other site 225937003453 elongation factor Ts; Provisional; Region: tsf; PRK09377 225937003454 UBA/TS-N domain; Region: UBA; pfam00627 225937003455 Elongation factor TS; Region: EF_TS; pfam00889 225937003456 Elongation factor TS; Region: EF_TS; pfam00889 225937003457 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 225937003458 putative nucleotide binding site [chemical binding]; other site 225937003459 uridine monophosphate binding site [chemical binding]; other site 225937003460 homohexameric interface [polypeptide binding]; other site 225937003461 ribosome recycling factor; Reviewed; Region: frr; PRK00083 225937003462 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 225937003463 hinge region; other site 225937003464 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 225937003465 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 225937003466 catalytic residue [active] 225937003467 putative FPP diphosphate binding site; other site 225937003468 putative FPP binding hydrophobic cleft; other site 225937003469 dimer interface [polypeptide binding]; other site 225937003470 putative IPP diphosphate binding site; other site 225937003471 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 225937003472 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 225937003473 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 225937003474 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 225937003475 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 225937003476 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 225937003477 zinc metallopeptidase RseP; Provisional; Region: PRK10779 225937003478 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 225937003479 active site 225937003480 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 225937003481 protein binding site [polypeptide binding]; other site 225937003482 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 225937003483 protein binding site [polypeptide binding]; other site 225937003484 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 225937003485 putative substrate binding region [chemical binding]; other site 225937003486 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 225937003487 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225937003488 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225937003489 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225937003490 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225937003491 Surface antigen; Region: Bac_surface_Ag; pfam01103 225937003492 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 225937003493 periplasmic chaperone; Provisional; Region: PRK10780 225937003494 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 225937003495 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 225937003496 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 225937003497 trimer interface [polypeptide binding]; other site 225937003498 active site 225937003499 UDP-GlcNAc binding site [chemical binding]; other site 225937003500 lipid binding site [chemical binding]; lipid-binding site 225937003501 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 225937003502 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 225937003503 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 225937003504 active site 225937003505 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 225937003506 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 225937003507 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 225937003508 RNA/DNA hybrid binding site [nucleotide binding]; other site 225937003509 active site 225937003510 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 225937003511 Interdomain contacts; other site 225937003512 Cytokine receptor motif; other site 225937003513 CHASE2 domain; Region: CHASE2; pfam05226 225937003514 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 225937003515 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 225937003516 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 225937003517 putative active site [active] 225937003518 heme pocket [chemical binding]; other site 225937003519 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 225937003520 ATP binding site [chemical binding]; other site 225937003521 Mg2+ binding site [ion binding]; other site 225937003522 G-X-G motif; other site 225937003523 FecR protein; Region: FecR; pfam04773 225937003524 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225937003525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937003526 active site 225937003527 phosphorylation site [posttranslational modification] 225937003528 intermolecular recognition site; other site 225937003529 dimerization interface [polypeptide binding]; other site 225937003530 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937003531 DNA binding site [nucleotide binding] 225937003532 DNA topoisomerase III; Provisional; Region: PRK07726 225937003533 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 225937003534 active site 225937003535 putative interdomain interaction site [polypeptide binding]; other site 225937003536 putative metal-binding site [ion binding]; other site 225937003537 putative nucleotide binding site [chemical binding]; other site 225937003538 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 225937003539 domain I; other site 225937003540 DNA binding groove [nucleotide binding] 225937003541 phosphate binding site [ion binding]; other site 225937003542 domain II; other site 225937003543 domain III; other site 225937003544 nucleotide binding site [chemical binding]; other site 225937003545 catalytic site [active] 225937003546 domain IV; other site 225937003547 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225937003548 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225937003549 BolA-like protein; Region: BolA; cl00386 225937003550 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 225937003551 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937003552 dimerization interface [polypeptide binding]; other site 225937003553 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937003554 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937003555 dimer interface [polypeptide binding]; other site 225937003556 putative CheW interface [polypeptide binding]; other site 225937003557 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 225937003558 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 225937003559 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; cl17173 225937003560 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 225937003561 Part of AAA domain; Region: AAA_19; pfam13245 225937003562 Family description; Region: UvrD_C_2; pfam13538 225937003563 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 225937003564 AAA domain; Region: AAA_21; pfam13304 225937003565 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 225937003566 putative active site [active] 225937003567 putative metal-binding site [ion binding]; other site 225937003568 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 225937003569 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 225937003570 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937003571 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 225937003572 Walker A motif; other site 225937003573 ATP binding site [chemical binding]; other site 225937003574 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 225937003575 AAA domain; Region: AAA_12; pfam13087 225937003576 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 225937003577 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 225937003578 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 225937003579 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 225937003580 antiviral radical SAM protein viperin; Region: viperin; TIGR04278 225937003581 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 225937003582 FeS/SAM binding site; other site 225937003583 CHAT domain; Region: CHAT; cl17868 225937003584 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 225937003585 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 225937003586 Probable Catalytic site; other site 225937003587 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 225937003588 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 225937003589 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 225937003590 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225937003591 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225937003592 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 225937003593 short chain dehydrogenase; Provisional; Region: PRK07201 225937003594 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 225937003595 putative NAD(P) binding site [chemical binding]; other site 225937003596 active site 225937003597 putative substrate binding site [chemical binding]; other site 225937003598 classical (c) SDRs; Region: SDR_c; cd05233 225937003599 NAD(P) binding site [chemical binding]; other site 225937003600 active site 225937003601 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937003602 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937003603 dimer interface [polypeptide binding]; other site 225937003604 putative CheW interface [polypeptide binding]; other site 225937003605 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 225937003606 ribonuclease T; Provisional; Region: PRK05168 225937003607 active site 225937003608 catalytic site [active] 225937003609 substrate binding site [chemical binding]; other site 225937003610 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 225937003611 active site 225937003612 substrate binding pocket [chemical binding]; other site 225937003613 dimer interface [polypeptide binding]; other site 225937003614 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225937003615 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937003616 ligand binding site [chemical binding]; other site 225937003617 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 225937003618 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 225937003619 putative active site [active] 225937003620 Zn binding site [ion binding]; other site 225937003621 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 225937003622 CoA binding domain; Region: CoA_binding_2; pfam13380 225937003623 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 225937003624 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 225937003625 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225937003626 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225937003627 Putative exonuclease, RdgC; Region: RdgC; pfam04381 225937003628 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 225937003629 hypothetical protein; Validated; Region: PRK02101 225937003630 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 225937003631 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 225937003632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937003633 NAD(P) binding site [chemical binding]; other site 225937003634 active site 225937003635 phosphoglycolate phosphatase; Provisional; Region: PRK13222 225937003636 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 225937003637 motif II; other site 225937003638 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 225937003639 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 225937003640 S-adenosylmethionine binding site [chemical binding]; other site 225937003641 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 225937003642 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 225937003643 active site 225937003644 putative substrate binding pocket [chemical binding]; other site 225937003645 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 225937003646 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 225937003647 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 225937003648 non-specific DNA binding site [nucleotide binding]; other site 225937003649 salt bridge; other site 225937003650 sequence-specific DNA binding site [nucleotide binding]; other site 225937003651 carboxy-terminal protease; Provisional; Region: PRK11186 225937003652 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 225937003653 protein binding site [polypeptide binding]; other site 225937003654 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 225937003655 Catalytic dyad [active] 225937003656 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 225937003657 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 225937003658 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 225937003659 substrate binding site [chemical binding]; other site 225937003660 oxyanion hole (OAH) forming residues; other site 225937003661 trimer interface [polypeptide binding]; other site 225937003662 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 225937003663 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225937003664 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225937003665 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 225937003666 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 225937003667 dimer interface [polypeptide binding]; other site 225937003668 active site 225937003669 Late competence development protein ComFB; Region: ComFB; pfam10719 225937003670 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 225937003671 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 225937003672 recombination regulator RecX; Reviewed; Region: recX; PRK00117 225937003673 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 225937003674 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937003675 substrate binding pocket [chemical binding]; other site 225937003676 membrane-bound complex binding site; other site 225937003677 hinge residues; other site 225937003678 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...; Region: LT_GEWL; cd00254 225937003679 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225937003680 catalytic residue [active] 225937003681 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 225937003682 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 225937003683 dimerization interface [polypeptide binding]; other site 225937003684 ATP binding site [chemical binding]; other site 225937003685 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 225937003686 dimerization interface [polypeptide binding]; other site 225937003687 ATP binding site [chemical binding]; other site 225937003688 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 225937003689 putative active site [active] 225937003690 catalytic triad [active] 225937003691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 225937003692 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 225937003693 nudix motif; other site 225937003694 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 225937003695 putative active site [active] 225937003696 putative CoA binding site [chemical binding]; other site 225937003697 nudix motif; other site 225937003698 metal binding site [ion binding]; metal-binding site 225937003699 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 225937003700 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 225937003701 trimer interface [polypeptide binding]; other site 225937003702 putative metal binding site [ion binding]; other site 225937003703 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 225937003704 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 225937003705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937003706 ATP-grasp domain; Region: ATP-grasp; pfam02222 225937003707 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937003708 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 225937003709 ATP binding site [chemical binding]; other site 225937003710 Mg2+ binding site [ion binding]; other site 225937003711 G-X-G motif; other site 225937003712 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 225937003713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937003714 active site 225937003715 phosphorylation site [posttranslational modification] 225937003716 intermolecular recognition site; other site 225937003717 dimerization interface [polypeptide binding]; other site 225937003718 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 225937003719 TPR motif; other site 225937003720 binding surface 225937003721 Tetratricopeptide repeat; Region: TPR_16; pfam13432 225937003722 TPR repeat; Region: TPR_11; pfam13414 225937003723 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 225937003724 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 225937003725 Na binding site [ion binding]; other site 225937003726 PAS fold; Region: PAS_7; pfam12860 225937003727 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937003728 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937003729 dimer interface [polypeptide binding]; other site 225937003730 phosphorylation site [posttranslational modification] 225937003731 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 225937003732 ATP binding site [chemical binding]; other site 225937003733 Mg2+ binding site [ion binding]; other site 225937003734 G-X-G motif; other site 225937003735 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937003736 Response regulator receiver domain; Region: Response_reg; pfam00072 225937003737 active site 225937003738 phosphorylation site [posttranslational modification] 225937003739 intermolecular recognition site; other site 225937003740 dimerization interface [polypeptide binding]; other site 225937003741 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 225937003742 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 225937003743 Na binding site [ion binding]; other site 225937003744 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 225937003745 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 225937003746 active site 225937003747 catalytic site [active] 225937003748 substrate binding site [chemical binding]; other site 225937003749 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 225937003750 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 225937003751 ligand binding site [chemical binding]; other site 225937003752 flexible hinge region; other site 225937003753 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 225937003754 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225937003755 metal binding triad; other site 225937003756 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 225937003757 Smr domain; Region: Smr; pfam01713 225937003758 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 225937003759 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 225937003760 catalytic loop [active] 225937003761 iron binding site [ion binding]; other site 225937003762 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 225937003763 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 225937003764 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 225937003765 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 225937003766 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 225937003767 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 225937003768 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 225937003769 XdhC Rossmann domain; Region: XdhC_C; pfam13478 225937003770 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 225937003771 intersubunit interface [polypeptide binding]; other site 225937003772 active site 225937003773 Zn2+ binding site [ion binding]; other site 225937003774 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 225937003775 Cupin domain; Region: Cupin_2; cl17218 225937003776 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 225937003777 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; cl17915 225937003778 motif II; other site 225937003779 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 225937003780 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 225937003781 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 225937003782 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 225937003783 Walker A motif; other site 225937003784 ATP binding site [chemical binding]; other site 225937003785 Walker B motif; other site 225937003786 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 225937003787 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 225937003788 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 225937003789 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 225937003790 ArsC family; Region: ArsC; pfam03960 225937003791 catalytic residues [active] 225937003792 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 225937003793 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225937003794 catalytic residues [active] 225937003795 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 225937003796 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 225937003797 putative active site [active] 225937003798 putative PHP Thumb interface [polypeptide binding]; other site 225937003799 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 225937003800 generic binding surface II; other site 225937003801 generic binding surface I; other site 225937003802 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 225937003803 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 225937003804 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 225937003805 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 225937003806 Ligand Binding Site [chemical binding]; other site 225937003807 TilS substrate binding domain; Region: TilS; pfam09179 225937003808 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 225937003809 CTP synthetase; Validated; Region: pyrG; PRK05380 225937003810 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 225937003811 Catalytic site [active] 225937003812 active site 225937003813 UTP binding site [chemical binding]; other site 225937003814 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 225937003815 active site 225937003816 putative oxyanion hole; other site 225937003817 catalytic triad [active] 225937003818 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 225937003819 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 225937003820 enolase; Provisional; Region: eno; PRK00077 225937003821 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 225937003822 dimer interface [polypeptide binding]; other site 225937003823 metal binding site [ion binding]; metal-binding site 225937003824 substrate binding pocket [chemical binding]; other site 225937003825 Septum formation initiator; Region: DivIC; cl17659 225937003826 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 225937003827 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 225937003828 substrate binding site; other site 225937003829 dimer interface; other site 225937003830 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 225937003831 homotrimer interaction site [polypeptide binding]; other site 225937003832 zinc binding site [ion binding]; other site 225937003833 CDP-binding sites; other site 225937003834 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 225937003835 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 225937003836 Permutation of conserved domain; other site 225937003837 active site 225937003838 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 225937003839 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 225937003840 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 225937003841 S-adenosylmethionine binding site [chemical binding]; other site 225937003842 Domain of unknown function (DUF368); Region: DUF368; pfam04018 225937003843 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 225937003844 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225937003845 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 225937003846 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 225937003847 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 225937003848 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937003849 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 225937003850 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937003851 DNA binding residues [nucleotide binding] 225937003852 endonuclease III; Provisional; Region: PRK10702 225937003853 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 225937003854 minor groove reading motif; other site 225937003855 helix-hairpin-helix signature motif; other site 225937003856 substrate binding pocket [chemical binding]; other site 225937003857 active site 225937003858 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 225937003859 electron transport complex RsxE subunit; Provisional; Region: PRK12405 225937003860 FMN-binding domain; Region: FMN_bind; cl01081 225937003861 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 225937003862 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 225937003863 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 225937003864 SLBB domain; Region: SLBB; pfam10531 225937003865 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 225937003866 electron transport complex protein RnfB; Provisional; Region: PRK05113 225937003867 4Fe-4S binding domain; Region: Fer4; pfam00037 225937003868 electron transport complex protein RsxA; Provisional; Region: PRK05151 225937003869 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 225937003870 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 225937003871 active site 225937003872 HIGH motif; other site 225937003873 KMSKS motif; other site 225937003874 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 225937003875 tRNA binding surface [nucleotide binding]; other site 225937003876 anticodon binding site; other site 225937003877 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 225937003878 dimer interface [polypeptide binding]; other site 225937003879 putative tRNA-binding site [nucleotide binding]; other site 225937003880 antiporter inner membrane protein; Provisional; Region: PRK11670 225937003881 Domain of unknown function DUF59; Region: DUF59; pfam01883 225937003882 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 225937003883 Walker A motif; other site 225937003884 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 225937003885 trimer interface [polypeptide binding]; other site 225937003886 active site 225937003887 Protein of unknown function (DUF416); Region: DUF416; pfam04222 225937003888 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 225937003889 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 225937003890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937003891 homodimer interface [polypeptide binding]; other site 225937003892 catalytic residue [active] 225937003893 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 225937003894 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 225937003895 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 225937003896 active site 225937003897 substrate binding site [chemical binding]; other site 225937003898 cosubstrate binding site; other site 225937003899 catalytic site [active] 225937003900 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 225937003901 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 225937003902 dimerization interface [polypeptide binding]; other site 225937003903 putative ATP binding site [chemical binding]; other site 225937003904 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 225937003905 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 225937003906 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 225937003907 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 225937003908 Walker A motif; other site 225937003909 ATP binding site [chemical binding]; other site 225937003910 Walker B motif; other site 225937003911 arginine finger; other site 225937003912 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 225937003913 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937003914 P-loop; other site 225937003915 Magnesium ion binding site [ion binding]; other site 225937003916 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937003917 Magnesium ion binding site [ion binding]; other site 225937003918 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 225937003919 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 225937003920 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 225937003921 dimerization interface [polypeptide binding]; other site 225937003922 active site 225937003923 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 225937003924 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 225937003925 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 225937003926 amidase catalytic site [active] 225937003927 Zn binding residues [ion binding]; other site 225937003928 substrate binding site [chemical binding]; other site 225937003929 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 225937003930 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937003931 dimerization interface [polypeptide binding]; other site 225937003932 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937003933 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937003934 dimer interface [polypeptide binding]; other site 225937003935 putative CheW interface [polypeptide binding]; other site 225937003936 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 225937003937 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 225937003938 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 225937003939 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 225937003940 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 225937003941 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 225937003942 HIGH motif; other site 225937003943 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 225937003944 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 225937003945 active site 225937003946 KMSKS motif; other site 225937003947 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 225937003948 tRNA binding surface [nucleotide binding]; other site 225937003949 anticodon binding site; other site 225937003950 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 225937003951 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 225937003952 multifunctional aminopeptidase A; Provisional; Region: PRK00913 225937003953 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 225937003954 interface (dimer of trimers) [polypeptide binding]; other site 225937003955 Substrate-binding/catalytic site; other site 225937003956 Zn-binding sites [ion binding]; other site 225937003957 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 225937003958 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 225937003959 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 225937003960 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 225937003961 RDD family; Region: RDD; pfam06271 225937003962 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 225937003963 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...; Region: AlaRS_core; cd00673 225937003964 motif 1; other site 225937003965 active site 225937003966 motif 2; other site 225937003967 motif 3; other site 225937003968 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 225937003969 DHHA1 domain; Region: DHHA1; pfam02272 225937003970 aspartate kinase; Reviewed; Region: PRK06635 225937003971 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 225937003972 putative nucleotide binding site [chemical binding]; other site 225937003973 putative catalytic residues [active] 225937003974 putative Mg ion binding site [ion binding]; other site 225937003975 putative aspartate binding site [chemical binding]; other site 225937003976 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 225937003977 putative allosteric regulatory site; other site 225937003978 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 225937003979 putative allosteric regulatory residue; other site 225937003980 carbon storage regulator; Provisional; Region: PRK01712 225937003981 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 225937003982 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 225937003983 Beta-Casp domain; Region: Beta-Casp; smart01027 225937003984 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 225937003985 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937003986 dimerization interface [polypeptide binding]; other site 225937003987 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937003988 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937003989 dimer interface [polypeptide binding]; other site 225937003990 putative CheW interface [polypeptide binding]; other site 225937003991 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 225937003992 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 225937003993 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 225937003994 ATP binding site [chemical binding]; other site 225937003995 Mg++ binding site [ion binding]; other site 225937003996 motif III; other site 225937003997 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 225937003998 nucleotide binding region [chemical binding]; other site 225937003999 ATP-binding site [chemical binding]; other site 225937004000 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 225937004001 putative RNA binding site [nucleotide binding]; other site 225937004002 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 225937004003 oxaloacetate decarboxylase; Provisional; Region: PRK14040 225937004004 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 225937004005 active site 225937004006 catalytic residues [active] 225937004007 metal binding site [ion binding]; metal-binding site 225937004008 homodimer binding site [polypeptide binding]; other site 225937004009 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 225937004010 carboxyltransferase (CT) interaction site; other site 225937004011 biotinylation site [posttranslational modification]; other site 225937004012 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 225937004013 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 225937004014 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 225937004015 putative active site [active] 225937004016 putative PHP Thumb interface [polypeptide binding]; other site 225937004017 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 225937004018 generic binding surface I; other site 225937004019 generic binding surface II; other site 225937004020 DNA Polymerase Y-family; Region: PolY_like; cd03468 225937004021 active site 225937004022 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 225937004023 DNA binding site [nucleotide binding] 225937004024 Cell division inhibitor SulA; Region: SulA; cl01880 225937004025 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_a; cd00913 225937004026 aromatic arch; other site 225937004027 DCoH dimer interaction site [polypeptide binding]; other site 225937004028 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 225937004029 DCoH tetramer interaction site [polypeptide binding]; other site 225937004030 substrate binding site [chemical binding]; other site 225937004031 YrhK-like protein; Region: YrhK; pfam14145 225937004032 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 225937004033 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 225937004034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937004035 Coenzyme A binding pocket [chemical binding]; other site 225937004036 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 225937004037 active site 225937004038 Zn binding site [ion binding]; other site 225937004039 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 225937004040 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 225937004041 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 225937004042 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 225937004043 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 225937004044 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 225937004045 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937004046 dimer interface [polypeptide binding]; other site 225937004047 conserved gate region; other site 225937004048 putative PBP binding loops; other site 225937004049 ABC-ATPase subunit interface; other site 225937004050 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 225937004051 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937004052 dimer interface [polypeptide binding]; other site 225937004053 conserved gate region; other site 225937004054 putative PBP binding loops; other site 225937004055 ABC-ATPase subunit interface; other site 225937004056 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 225937004057 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 225937004058 Walker A/P-loop; other site 225937004059 ATP binding site [chemical binding]; other site 225937004060 Q-loop/lid; other site 225937004061 ABC transporter signature motif; other site 225937004062 Walker B; other site 225937004063 D-loop; other site 225937004064 H-loop/switch region; other site 225937004065 TOBE-like domain; Region: TOBE_3; pfam12857 225937004066 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937004067 metabolite-proton symporter; Region: 2A0106; TIGR00883 225937004068 putative substrate translocation pore; other site 225937004069 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225937004070 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937004071 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 225937004072 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 225937004073 Walker A/P-loop; other site 225937004074 ATP binding site [chemical binding]; other site 225937004075 Q-loop/lid; other site 225937004076 ABC transporter signature motif; other site 225937004077 Walker B; other site 225937004078 D-loop; other site 225937004079 H-loop/switch region; other site 225937004080 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 225937004081 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 225937004082 AAA domain; Region: AAA_32; pfam13654 225937004083 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 225937004084 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 225937004085 FtsH Extracellular; Region: FtsH_ext; pfam06480 225937004086 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 225937004087 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937004088 Walker A motif; other site 225937004089 ATP binding site [chemical binding]; other site 225937004090 Walker B motif; other site 225937004091 arginine finger; other site 225937004092 Peptidase family M41; Region: Peptidase_M41; pfam01434 225937004093 Domain of unknown function DUF77; Region: DUF77; cl00307 225937004094 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 225937004095 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 225937004096 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 225937004097 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 225937004098 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 225937004099 putative active site [active] 225937004100 putative substrate binding site [chemical binding]; other site 225937004101 putative cosubstrate binding site; other site 225937004102 catalytic site [active] 225937004103 DNA gyrase subunit A; Validated; Region: PRK05560 225937004104 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...; Region: TOP4c; cd00187 225937004105 CAP-like domain; other site 225937004106 active site 225937004107 primary dimer interface [polypeptide binding]; other site 225937004108 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225937004109 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225937004110 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225937004111 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225937004112 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225937004113 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225937004114 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 225937004115 homodimer interface [polypeptide binding]; other site 225937004116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937004117 substrate-cofactor binding pocket; other site 225937004118 catalytic residue [active] 225937004119 Chorismate mutase type II; Region: CM_2; cl00693 225937004120 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 225937004121 Prephenate dehydratase; Region: PDT; pfam00800 225937004122 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 225937004123 putative L-Phe binding site [chemical binding]; other site 225937004124 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 225937004125 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 225937004126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937004127 homodimer interface [polypeptide binding]; other site 225937004128 catalytic residue [active] 225937004129 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 225937004130 prephenate dehydrogenase; Validated; Region: PRK08507 225937004131 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 225937004132 hinge; other site 225937004133 active site 225937004134 cytidylate kinase; Provisional; Region: cmk; PRK00023 225937004135 AAA domain; Region: AAA_17; pfam13207 225937004136 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 225937004137 CMP-binding site; other site 225937004138 The sites determining sugar specificity; other site 225937004139 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 225937004140 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 225937004141 RNA binding site [nucleotide binding]; other site 225937004142 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 225937004143 RNA binding site [nucleotide binding]; other site 225937004144 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...; Region: S1_RPS1_repeat_ec3; cd05688 225937004145 RNA binding site [nucleotide binding]; other site 225937004146 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...; Region: S1_RPS1_repeat_ec4; cd05689 225937004147 RNA binding site [nucleotide binding]; other site 225937004148 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 225937004149 RNA binding site [nucleotide binding]; other site 225937004150 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...; Region: S1_RPS1_repeat_ec6; cd05691 225937004151 RNA binding site [nucleotide binding]; other site 225937004152 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 225937004153 IHF - DNA interface [nucleotide binding]; other site 225937004154 IHF dimer interface [polypeptide binding]; other site 225937004155 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 225937004156 tetratricopeptide repeat protein; Provisional; Region: PRK11788 225937004157 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...; Region: OMP_decarboxylase_like; cd04725 225937004158 active site 225937004159 dimer interface [polypeptide binding]; other site 225937004160 aspartate aminotransferase; Provisional; Region: PRK05764 225937004161 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 225937004162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937004163 homodimer interface [polypeptide binding]; other site 225937004164 catalytic residue [active] 225937004165 excinuclease ABC subunit B; Provisional; Region: PRK05298 225937004166 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 225937004167 ATP binding site [chemical binding]; other site 225937004168 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 225937004169 nucleotide binding region [chemical binding]; other site 225937004170 ATP-binding site [chemical binding]; other site 225937004171 Ultra-violet resistance protein B; Region: UvrB; pfam12344 225937004172 UvrB/uvrC motif; Region: UVR; pfam02151 225937004173 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 225937004174 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937004175 Coenzyme A binding pocket [chemical binding]; other site 225937004176 Peptidase_C39 like family; Region: DUF3335; pfam11814 225937004177 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 225937004178 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 225937004179 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225937004180 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 225937004181 Cation efflux family; Region: Cation_efflux; pfam01545 225937004182 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 225937004183 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 225937004184 active site 225937004185 catalytic residues [active] 225937004186 FMN binding site [chemical binding]; other site 225937004187 quinone interaction residues [chemical binding]; other site 225937004188 substrate binding site [chemical binding]; other site 225937004189 Ribosome modulation factor; Region: RMF; cl01207 225937004190 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 225937004191 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 225937004192 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; cl17173 225937004193 Methyltransferase domain; Region: Methyltransf_26; pfam13659 225937004194 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225937004195 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 225937004196 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 225937004197 active site 225937004198 metal binding site [ion binding]; metal-binding site 225937004199 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 225937004200 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 225937004201 active site 225937004202 catalytic triad [active] 225937004203 oxyanion hole [active] 225937004204 switch loop; other site 225937004205 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 225937004206 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225937004207 Walker A/P-loop; other site 225937004208 ATP binding site [chemical binding]; other site 225937004209 Q-loop/lid; other site 225937004210 ABC transporter signature motif; other site 225937004211 Walker B; other site 225937004212 D-loop; other site 225937004213 H-loop/switch region; other site 225937004214 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 225937004215 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225937004216 FtsX-like permease family; Region: FtsX; pfam02687 225937004217 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937004218 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937004219 substrate binding pocket [chemical binding]; other site 225937004220 membrane-bound complex binding site; other site 225937004221 hinge residues; other site 225937004222 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 225937004223 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 225937004224 active site 225937004225 NAD binding site [chemical binding]; other site 225937004226 metal binding site [ion binding]; metal-binding site 225937004227 Peptidase family M48; Region: Peptidase_M48; pfam01435 225937004228 TPR repeat; Region: TPR_11; pfam13414 225937004229 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 225937004230 TPR motif; other site 225937004231 binding surface 225937004232 Tetratricopeptide repeat; Region: TPR_16; pfam13432 225937004233 Protein of unknown function, DUF599; Region: DUF599; pfam04654 225937004234 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 225937004235 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 225937004236 CoenzymeA binding site [chemical binding]; other site 225937004237 subunit interaction site [polypeptide binding]; other site 225937004238 PHB binding site; other site 225937004239 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 225937004240 CoenzymeA binding site [chemical binding]; other site 225937004241 subunit interaction site [polypeptide binding]; other site 225937004242 PHB binding site; other site 225937004243 heat shock protein 90; Provisional; Region: PRK05218 225937004244 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 225937004245 ATP binding site [chemical binding]; other site 225937004246 Mg2+ binding site [ion binding]; other site 225937004247 G-X-G motif; other site 225937004248 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 225937004249 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 225937004250 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 225937004251 dimer interface [polypeptide binding]; other site 225937004252 active site 225937004253 heme binding site [chemical binding]; other site 225937004254 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 225937004255 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 225937004256 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 225937004257 FMN binding site [chemical binding]; other site 225937004258 active site 225937004259 catalytic residues [active] 225937004260 substrate binding site [chemical binding]; other site 225937004261 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 225937004262 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 225937004263 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 225937004264 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 225937004265 active site 225937004266 intersubunit interface [polypeptide binding]; other site 225937004267 catalytic residue [active] 225937004268 Predicted dehydrogenase [General function prediction only]; Region: COG5322 225937004269 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 225937004270 NAD(P) binding pocket [chemical binding]; other site 225937004271 YcaO domain protein; Region: TIGR03549 225937004272 OsmC-like protein; Region: OsmC; pfam02566 225937004273 YcaO-like family; Region: YcaO; pfam02624 225937004274 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 225937004275 aspartate racemase; Region: asp_race; TIGR00035 225937004276 MltA-interacting protein MipA; Region: MipA; cl01504 225937004277 Histidine kinase; Region: His_kinase; pfam06580 225937004278 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 225937004279 ATP binding site [chemical binding]; other site 225937004280 Mg2+ binding site [ion binding]; other site 225937004281 G-X-G motif; other site 225937004282 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 225937004283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937004284 active site 225937004285 phosphorylation site [posttranslational modification] 225937004286 intermolecular recognition site; other site 225937004287 dimerization interface [polypeptide binding]; other site 225937004288 LytTr DNA-binding domain; Region: LytTR; smart00850 225937004289 Pirin-related protein [General function prediction only]; Region: COG1741 225937004290 Pirin; Region: Pirin; pfam02678 225937004291 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 225937004292 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 225937004293 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 225937004294 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 225937004295 N-terminal plug; other site 225937004296 ligand-binding site [chemical binding]; other site 225937004297 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 225937004298 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225937004299 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937004300 Coenzyme A binding pocket [chemical binding]; other site 225937004301 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 225937004302 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 225937004303 active site 225937004304 Zn binding site [ion binding]; other site 225937004305 PAS domain S-box; Region: sensory_box; TIGR00229 225937004306 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 225937004307 putative active site [active] 225937004308 heme pocket [chemical binding]; other site 225937004309 GAF domain; Region: GAF_3; pfam13492 225937004310 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937004311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937004312 metal binding site [ion binding]; metal-binding site 225937004313 active site 225937004314 I-site; other site 225937004315 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 225937004316 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 225937004317 CoA-transferase family III; Region: CoA_transf_3; pfam02515 225937004318 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 225937004319 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225937004320 Walker A/P-loop; other site 225937004321 ATP binding site [chemical binding]; other site 225937004322 Q-loop/lid; other site 225937004323 ABC transporter signature motif; other site 225937004324 Walker B; other site 225937004325 D-loop; other site 225937004326 H-loop/switch region; other site 225937004327 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225937004328 FtsX-like permease family; Region: FtsX; pfam02687 225937004329 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937004330 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937004331 substrate binding pocket [chemical binding]; other site 225937004332 membrane-bound complex binding site; other site 225937004333 hinge residues; other site 225937004334 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 225937004335 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937004336 dimer interface [polypeptide binding]; other site 225937004337 conserved gate region; other site 225937004338 putative PBP binding loops; other site 225937004339 ABC-ATPase subunit interface; other site 225937004340 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937004341 dimer interface [polypeptide binding]; other site 225937004342 conserved gate region; other site 225937004343 putative PBP binding loops; other site 225937004344 ABC-ATPase subunit interface; other site 225937004345 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 225937004346 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937004347 Walker A/P-loop; other site 225937004348 ATP binding site [chemical binding]; other site 225937004349 Q-loop/lid; other site 225937004350 ABC transporter signature motif; other site 225937004351 Walker B; other site 225937004352 D-loop; other site 225937004353 H-loop/switch region; other site 225937004354 short chain dehydrogenase; Provisional; Region: PRK08251 225937004355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937004356 NAD(P) binding site [chemical binding]; other site 225937004357 active site 225937004358 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 225937004359 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 225937004360 Beta-lactamase; Region: Beta-lactamase; pfam00144 225937004361 hypothetical protein; Provisional; Region: PRK02237 225937004362 DinB family; Region: DinB; cl17821 225937004363 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225937004364 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 225937004365 putative C-terminal domain interface [polypeptide binding]; other site 225937004366 putative GSH binding site (G-site) [chemical binding]; other site 225937004367 putative dimer interface [polypeptide binding]; other site 225937004368 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 225937004369 N-terminal domain interface [polypeptide binding]; other site 225937004370 dimer interface [polypeptide binding]; other site 225937004371 substrate binding pocket (H-site) [chemical binding]; other site 225937004372 hypothetical protein; Provisional; Region: PRK11019 225937004373 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 225937004374 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 225937004375 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 225937004376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937004377 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 225937004378 dimerization interface [polypeptide binding]; other site 225937004379 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 225937004380 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 225937004381 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 225937004382 nucleoside/Zn binding site; other site 225937004383 dimer interface [polypeptide binding]; other site 225937004384 catalytic motif [active] 225937004385 AAA domain; Region: AAA_17; pfam13207 225937004386 AAA domain; Region: AAA_33; pfam13671 225937004387 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 225937004388 active site 225937004389 NTP binding site [chemical binding]; other site 225937004390 metal binding triad [ion binding]; metal-binding site 225937004391 TSCPD domain; Region: TSCPD; pfam12637 225937004392 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 225937004393 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 225937004394 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 225937004395 active site 225937004396 dimer interface [polypeptide binding]; other site 225937004397 effector binding site; other site 225937004398 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 225937004399 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 225937004400 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937004401 Walker A/P-loop; other site 225937004402 ATP binding site [chemical binding]; other site 225937004403 Q-loop/lid; other site 225937004404 ABC transporter signature motif; other site 225937004405 Walker B; other site 225937004406 D-loop; other site 225937004407 H-loop/switch region; other site 225937004408 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 225937004409 TM-ABC transporter signature motif; other site 225937004410 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 225937004411 zinc binding site [ion binding]; other site 225937004412 putative ligand binding site [chemical binding]; other site 225937004413 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 225937004414 AMP-binding enzyme; Region: AMP-binding; pfam00501 225937004415 acyl-activating enzyme (AAE) consensus motif; other site 225937004416 putative AMP binding site [chemical binding]; other site 225937004417 putative active site [active] 225937004418 putative CoA binding site [chemical binding]; other site 225937004419 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 225937004420 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 225937004421 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937004422 dimer interface [polypeptide binding]; other site 225937004423 conserved gate region; other site 225937004424 putative PBP binding loops; other site 225937004425 ABC-ATPase subunit interface; other site 225937004426 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937004427 dimer interface [polypeptide binding]; other site 225937004428 conserved gate region; other site 225937004429 putative PBP binding loops; other site 225937004430 ABC-ATPase subunit interface; other site 225937004431 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 225937004432 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 225937004433 PilZ domain; Region: PilZ; pfam07238 225937004434 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 225937004435 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 225937004436 HD domain; Region: HD_5; pfam13487 225937004437 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 225937004438 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 225937004439 Walker A/P-loop; other site 225937004440 ATP binding site [chemical binding]; other site 225937004441 Q-loop/lid; other site 225937004442 ABC transporter signature motif; other site 225937004443 Walker B; other site 225937004444 D-loop; other site 225937004445 H-loop/switch region; other site 225937004446 inner membrane transport permease; Provisional; Region: PRK15066 225937004447 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 225937004448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 225937004449 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 225937004450 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 225937004451 MASE2 domain; Region: MASE2; pfam05230 225937004452 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 225937004453 cyclase homology domain; Region: CHD; cd07302 225937004454 nucleotidyl binding site; other site 225937004455 metal binding site [ion binding]; metal-binding site 225937004456 dimer interface [polypeptide binding]; other site 225937004457 Protein of unknown function (DUF962); Region: DUF962; cl01879 225937004458 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 225937004459 putative FMN binding site [chemical binding]; other site 225937004460 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 225937004461 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 225937004462 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 225937004463 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 225937004464 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225937004465 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 225937004466 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 225937004467 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 225937004468 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 225937004469 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 225937004470 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 225937004471 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225937004472 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 225937004473 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225937004474 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 225937004475 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 225937004476 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225937004477 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 225937004478 Flagellar L-ring protein; Region: FlgH; pfam02107 225937004479 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 225937004480 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 225937004481 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 225937004482 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 225937004483 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 225937004484 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 225937004485 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225937004486 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 225937004487 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 225937004488 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 225937004489 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 225937004490 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 225937004491 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 225937004492 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 225937004493 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 225937004494 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 225937004495 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 225937004496 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 225937004497 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 225937004498 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 225937004499 Protein export membrane protein; Region: SecD_SecF; pfam02355 225937004500 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 225937004501 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 225937004502 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 225937004503 serine O-acetyltransferase; Region: cysE; TIGR01172 225937004504 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 225937004505 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 225937004506 trimer interface [polypeptide binding]; other site 225937004507 active site 225937004508 substrate binding site [chemical binding]; other site 225937004509 CoA binding site [chemical binding]; other site 225937004510 Transcriptional regulator; Region: Rrf2; cl17282 225937004511 Rrf2 family protein; Region: rrf2_super; TIGR00738 225937004512 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 225937004513 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 225937004514 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225937004515 catalytic residue [active] 225937004516 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 225937004517 active site 225937004518 multimer interface [polypeptide binding]; other site 225937004519 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 225937004520 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 225937004521 FeS/SAM binding site; other site 225937004522 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 225937004523 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 225937004524 binding surface 225937004525 TPR motif; other site 225937004526 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 225937004527 binding surface 225937004528 TPR motif; other site 225937004529 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 225937004530 non-specific DNA binding site [nucleotide binding]; other site 225937004531 salt bridge; other site 225937004532 sequence-specific DNA binding site [nucleotide binding]; other site 225937004533 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 225937004534 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 225937004535 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 225937004536 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 225937004537 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 225937004538 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...; Region: HisRS-like_core; cd00773 225937004539 dimer interface [polypeptide binding]; other site 225937004540 motif 1; other site 225937004541 active site 225937004542 motif 2; other site 225937004543 motif 3; other site 225937004544 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 225937004545 anticodon binding site; other site 225937004546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 225937004547 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 225937004548 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 225937004549 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 225937004550 Trp docking motif [polypeptide binding]; other site 225937004551 active site 225937004552 GTP-binding protein Der; Reviewed; Region: PRK00093 225937004553 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 225937004554 Switch I region; other site 225937004555 G2 box; other site 225937004556 Switch II region; other site 225937004557 G3 box; other site 225937004558 GTP/Mg2+ binding site [chemical binding]; other site 225937004559 G4 box; other site 225937004560 G5 box; other site 225937004561 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 225937004562 G1 box; other site 225937004563 GTP/Mg2+ binding site [chemical binding]; other site 225937004564 Switch I region; other site 225937004565 G2 box; other site 225937004566 G3 box; other site 225937004567 Switch II region; other site 225937004568 G4 box; other site 225937004569 G5 box; other site 225937004570 phosphate acetyltransferase; Reviewed; Region: PRK05632 225937004571 DRTGG domain; Region: DRTGG; pfam07085 225937004572 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 225937004573 propionate/acetate kinase; Provisional; Region: PRK12379 225937004574 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 225937004575 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 225937004576 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 225937004577 PAS domain; Region: PAS_9; pfam13426 225937004578 putative active site [active] 225937004579 heme pocket [chemical binding]; other site 225937004580 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937004581 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937004582 metal binding site [ion binding]; metal-binding site 225937004583 active site 225937004584 I-site; other site 225937004585 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 225937004586 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 225937004587 TIGR01777 family protein; Region: yfcH 225937004588 putative NAD(P) binding site [chemical binding]; other site 225937004589 putative active site [active] 225937004590 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 225937004591 putative active site [active] 225937004592 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 225937004593 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 225937004594 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 225937004595 MOSC domain; Region: MOSC; pfam03473 225937004596 ABC transporter ATPase component; Reviewed; Region: PRK11147 225937004597 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937004598 Walker A/P-loop; other site 225937004599 ATP binding site [chemical binding]; other site 225937004600 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225937004601 ABC transporter signature motif; other site 225937004602 Walker B; other site 225937004603 ABC transporter; Region: ABC_tran_2; pfam12848 225937004604 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225937004605 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 225937004606 Ligand Binding Site [chemical binding]; other site 225937004607 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 225937004608 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 225937004609 substrate binding site [chemical binding]; other site 225937004610 oxyanion hole (OAH) forming residues; other site 225937004611 trimer interface [polypeptide binding]; other site 225937004612 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 225937004613 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225937004614 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 225937004615 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 225937004616 dimer interface [polypeptide binding]; other site 225937004617 active site 225937004618 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 225937004619 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 225937004620 active site 225937004621 interdomain interaction site; other site 225937004622 putative metal-binding site [ion binding]; other site 225937004623 nucleotide binding site [chemical binding]; other site 225937004624 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 225937004625 domain I; other site 225937004626 DNA binding groove [nucleotide binding] 225937004627 phosphate binding site [ion binding]; other site 225937004628 domain II; other site 225937004629 domain III; other site 225937004630 nucleotide binding site [chemical binding]; other site 225937004631 catalytic site [active] 225937004632 domain IV; other site 225937004633 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225937004634 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225937004635 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 225937004636 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 225937004637 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 225937004638 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 225937004639 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 225937004640 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 225937004641 dimer interface [polypeptide binding]; other site 225937004642 active site 225937004643 citrylCoA binding site [chemical binding]; other site 225937004644 NADH binding [chemical binding]; other site 225937004645 cationic pore residues; other site 225937004646 oxalacetate/citrate binding site [chemical binding]; other site 225937004647 coenzyme A binding site [chemical binding]; other site 225937004648 catalytic triad [active] 225937004649 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 225937004650 Iron-sulfur protein interface; other site 225937004651 proximal quinone binding site [chemical binding]; other site 225937004652 SdhD (CybS) interface [polypeptide binding]; other site 225937004653 proximal heme binding site [chemical binding]; other site 225937004654 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 225937004655 SdhC subunit interface [polypeptide binding]; other site 225937004656 proximal heme binding site [chemical binding]; other site 225937004657 cardiolipin binding site; other site 225937004658 Iron-sulfur protein interface; other site 225937004659 proximal quinone binding site [chemical binding]; other site 225937004660 L-aspartate oxidase; Provisional; Region: PRK06175 225937004661 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 225937004662 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 225937004663 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 225937004664 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 225937004665 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 225937004666 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 225937004667 TPP-binding site [chemical binding]; other site 225937004668 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 225937004669 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 225937004670 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 225937004671 E3 interaction surface; other site 225937004672 lipoyl attachment site [posttranslational modification]; other site 225937004673 e3 binding domain; Region: E3_binding; pfam02817 225937004674 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 225937004675 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 225937004676 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 225937004677 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937004678 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225937004679 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 225937004680 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 225937004681 CoA-ligase; Region: Ligase_CoA; pfam00549 225937004682 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 225937004683 CoA binding domain; Region: CoA_binding; pfam02629 225937004684 CoA-ligase; Region: Ligase_CoA; pfam00549 225937004685 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 225937004686 active site 225937004687 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 225937004688 HIGH motif; other site 225937004689 dimer interface [polypeptide binding]; other site 225937004690 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 225937004691 active site 225937004692 KMSKS motif; other site 225937004693 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 225937004694 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 225937004695 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 225937004696 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 225937004697 RNA binding surface [nucleotide binding]; other site 225937004698 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 225937004699 probable active site [active] 225937004700 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937004701 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937004702 metal binding site [ion binding]; metal-binding site 225937004703 active site 225937004704 I-site; other site 225937004705 Transcriptional regulators [Transcription]; Region: GntR; COG1802 225937004706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937004707 DNA-binding site [nucleotide binding]; DNA binding site 225937004708 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 225937004709 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 225937004710 Walker A/P-loop; other site 225937004711 ATP binding site [chemical binding]; other site 225937004712 Q-loop/lid; other site 225937004713 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 225937004714 ABC transporter signature motif; other site 225937004715 Walker B; other site 225937004716 D-loop; other site 225937004717 H-loop/switch region; other site 225937004718 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 225937004719 FtsZ protein binding site [polypeptide binding]; other site 225937004720 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 225937004721 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 225937004722 nucleotide binding pocket [chemical binding]; other site 225937004723 K-X-D-G motif; other site 225937004724 catalytic site [active] 225937004725 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 225937004726 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 225937004727 Helix-hairpin-helix motif; Region: HHH; pfam00633 225937004728 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 225937004729 Dimer interface [polypeptide binding]; other site 225937004730 BRCT sequence motif; other site 225937004731 FOG: CBS domain [General function prediction only]; Region: COG0517 225937004732 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 225937004733 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 225937004734 Uncharacterized conserved protein [Function unknown]; Region: COG4121 225937004735 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937004736 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937004737 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 225937004738 active site 225937004739 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 225937004740 FlgN protein; Region: FlgN; pfam05130 225937004741 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 225937004742 SAF-like; Region: SAF_2; pfam13144 225937004743 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 225937004744 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 225937004745 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225937004746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937004747 active site 225937004748 phosphorylation site [posttranslational modification] 225937004749 intermolecular recognition site; other site 225937004750 dimerization interface [polypeptide binding]; other site 225937004751 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 225937004752 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 225937004753 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 225937004754 S-adenosylmethionine binding site [chemical binding]; other site 225937004755 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 225937004756 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 225937004757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937004758 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 225937004759 dimerization interface [polypeptide binding]; other site 225937004760 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 225937004761 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 225937004762 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 225937004763 Isochorismatase family; Region: Isochorismatase; pfam00857 225937004764 catalytic triad [active] 225937004765 dimer interface [polypeptide binding]; other site 225937004766 conserved cis-peptide bond; other site 225937004767 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 225937004768 S-adenosylmethionine binding site [chemical binding]; other site 225937004769 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 225937004770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937004771 Coenzyme A binding pocket [chemical binding]; other site 225937004772 Acylphosphatase; Region: Acylphosphatase; pfam00708 225937004773 Fructosamine kinase; Region: Fructosamin_kin; cl17579 225937004774 Phosphotransferase enzyme family; Region: APH; pfam01636 225937004775 Predicted permeases [General function prediction only]; Region: COG0679 225937004776 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 225937004777 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 225937004778 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 225937004779 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 225937004780 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 225937004781 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 225937004782 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 225937004783 catalytic loop [active] 225937004784 iron binding site [ion binding]; other site 225937004785 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 225937004786 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 225937004787 AzlC protein; Region: AzlC; cl00570 225937004788 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 225937004789 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937004790 dimer interface [polypeptide binding]; other site 225937004791 putative CheW interface [polypeptide binding]; other site 225937004792 response regulator; Provisional; Region: PRK09483 225937004793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937004794 active site 225937004795 phosphorylation site [posttranslational modification] 225937004796 intermolecular recognition site; other site 225937004797 dimerization interface [polypeptide binding]; other site 225937004798 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937004799 DNA binding residues [nucleotide binding] 225937004800 dimerization interface [polypeptide binding]; other site 225937004801 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 225937004802 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 225937004803 GIY-YIG motif/motif A; other site 225937004804 active site 225937004805 catalytic site [active] 225937004806 putative DNA binding site [nucleotide binding]; other site 225937004807 metal binding site [ion binding]; metal-binding site 225937004808 UvrB/uvrC motif; Region: UVR; pfam02151 225937004809 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 225937004810 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 225937004811 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 225937004812 mce related protein; Region: MCE; pfam02470 225937004813 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 225937004814 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 225937004815 Walker A/P-loop; other site 225937004816 ATP binding site [chemical binding]; other site 225937004817 Q-loop/lid; other site 225937004818 ABC transporter signature motif; other site 225937004819 Walker B; other site 225937004820 D-loop; other site 225937004821 H-loop/switch region; other site 225937004822 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 225937004823 Permease; Region: Permease; pfam02405 225937004824 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 225937004825 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 225937004826 putative dimer interface [polypeptide binding]; other site 225937004827 [2Fe-2S] cluster binding site [ion binding]; other site 225937004828 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 225937004829 SLBB domain; Region: SLBB; pfam10531 225937004830 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 225937004831 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 225937004832 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 225937004833 catalytic loop [active] 225937004834 iron binding site [ion binding]; other site 225937004835 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 225937004836 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 225937004837 [4Fe-4S] binding site [ion binding]; other site 225937004838 molybdopterin cofactor binding site; other site 225937004839 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 225937004840 molybdopterin cofactor binding site; other site 225937004841 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 225937004842 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 225937004843 active site 225937004844 metal binding site [ion binding]; metal-binding site 225937004845 DNA binding site [nucleotide binding] 225937004846 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937004847 AAA domain; Region: AAA_23; pfam13476 225937004848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937004849 Walker A/P-loop; other site 225937004850 Walker A/P-loop; other site 225937004851 ATP binding site [chemical binding]; other site 225937004852 ATP binding site [chemical binding]; other site 225937004853 Q-loop/lid; other site 225937004854 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 225937004855 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 225937004856 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 225937004857 HsdM N-terminal domain; Region: HsdM_N; pfam12161 225937004858 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 225937004859 S-adenosylmethionine binding site [chemical binding]; other site 225937004860 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 225937004861 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 225937004862 Uncharacterized conserved protein [Function unknown]; Region: COG1479 225937004863 Protein of unknown function DUF262; Region: DUF262; pfam03235 225937004864 Protein of unknown function DUF262; Region: DUF262; pfam03235 225937004865 Uncharacterized conserved protein [Function unknown]; Region: COG1479 225937004866 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 225937004867 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 225937004868 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 225937004869 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 225937004870 ATP binding site [chemical binding]; other site 225937004871 putative Mg++ binding site [ion binding]; other site 225937004872 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 225937004873 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937004874 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 225937004875 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225937004876 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 225937004877 putative active site [active] 225937004878 putative FMN binding site [chemical binding]; other site 225937004879 putative substrate binding site [chemical binding]; other site 225937004880 putative catalytic residue [active] 225937004881 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 225937004882 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 225937004883 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 225937004884 short chain dehydrogenase; Provisional; Region: PRK05993 225937004885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937004886 NAD(P) binding site [chemical binding]; other site 225937004887 active site 225937004888 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 225937004889 minor groove reading motif; other site 225937004890 helix-hairpin-helix signature motif; other site 225937004891 active site 225937004892 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 225937004893 AmiB activator; Provisional; Region: PRK11637 225937004894 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 225937004895 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 225937004896 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 225937004897 active site 225937004898 nucleophile elbow; other site 225937004899 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 225937004900 hydroxyglutarate oxidase; Provisional; Region: PRK11728 225937004901 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 225937004902 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 225937004903 putative N- and C-terminal domain interface [polypeptide binding]; other site 225937004904 putative active site [active] 225937004905 MgATP binding site [chemical binding]; other site 225937004906 catalytic site [active] 225937004907 metal binding site [ion binding]; metal-binding site 225937004908 putative carbohydrate binding site [chemical binding]; other site 225937004909 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 225937004910 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 225937004911 FAD binding domain; Region: FAD_binding_4; pfam01565 225937004912 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 225937004913 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 225937004914 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 225937004915 type II secretion system protein E; Region: type_II_gspE; TIGR02533 225937004916 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 225937004917 Walker A motif; other site 225937004918 ATP binding site [chemical binding]; other site 225937004919 Walker B motif; other site 225937004920 type II secretion system protein F; Region: GspF; TIGR02120 225937004921 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225937004922 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225937004923 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 225937004924 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 225937004925 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 225937004926 type II secretion system protein I; Region: gspI; TIGR01707 225937004927 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 225937004928 type II secretion system protein J; Region: gspJ; TIGR01711 225937004929 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 225937004930 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 225937004931 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 225937004932 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 225937004933 GspL periplasmic domain; Region: GspL_C; cl14909 225937004934 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 225937004935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937004936 Coenzyme A binding pocket [chemical binding]; other site 225937004937 glutathione reductase; Validated; Region: PRK06116 225937004938 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937004939 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937004940 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937004941 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225937004942 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937004943 HAMP domain; Region: HAMP; pfam00672 225937004944 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937004945 dimer interface [polypeptide binding]; other site 225937004946 phosphorylation site [posttranslational modification] 225937004947 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 225937004948 ATP binding site [chemical binding]; other site 225937004949 Mg2+ binding site [ion binding]; other site 225937004950 G-X-G motif; other site 225937004951 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937004952 Response regulator receiver domain; Region: Response_reg; pfam00072 225937004953 active site 225937004954 phosphorylation site [posttranslational modification] 225937004955 intermolecular recognition site; other site 225937004956 dimerization interface [polypeptide binding]; other site 225937004957 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 225937004958 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225937004959 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 225937004960 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 225937004961 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 225937004962 Transcriptional regulators [Transcription]; Region: FadR; COG2186 225937004963 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937004964 DNA-binding site [nucleotide binding]; DNA binding site 225937004965 FCD domain; Region: FCD; pfam07729 225937004966 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 225937004967 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 225937004968 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937004969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937004970 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 225937004971 dimerization interface [polypeptide binding]; other site 225937004972 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 225937004973 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 225937004974 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 225937004975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 225937004976 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 225937004977 YebG protein; Region: YebG; pfam07130 225937004978 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 225937004979 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 225937004980 dimer interface [polypeptide binding]; other site 225937004981 active site 225937004982 CoA binding pocket [chemical binding]; other site 225937004983 Protein of unknown function (DUF465); Region: DUF465; cl01070 225937004984 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 225937004985 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 225937004986 HAMP domain; Region: HAMP; pfam00672 225937004987 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937004988 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937004989 dimer interface [polypeptide binding]; other site 225937004990 putative CheW interface [polypeptide binding]; other site 225937004991 Protein kinase domain; Region: Pkinase; pfam00069 225937004992 Catalytic domain of Protein Kinases; Region: PKc; cd00180 225937004993 active site 225937004994 ATP binding site [chemical binding]; other site 225937004995 substrate binding site [chemical binding]; other site 225937004996 activation loop (A-loop); other site 225937004997 potential frameshift: common BLAST hit: gi|120554304|ref|YP_958655.1| dihydrolipoamide acetyltransferase 225937004998 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 225937004999 E3 interaction surface; other site 225937005000 2-oxoisovalerate dehydrogenase E2 component; Region: PLN02528 225937005001 lipoyl attachment site [posttranslational modification]; other site 225937005002 e3 binding domain; Region: E3_binding; pfam02817 225937005003 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 225937005004 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 225937005005 E3 interaction surface; other site 225937005006 lipoyl attachment site [posttranslational modification]; other site 225937005007 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 225937005008 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 225937005009 alpha subunit interface [polypeptide binding]; other site 225937005010 TPP binding site [chemical binding]; other site 225937005011 heterodimer interface [polypeptide binding]; other site 225937005012 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 225937005013 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 225937005014 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 225937005015 tetramer interface [polypeptide binding]; other site 225937005016 TPP-binding site [chemical binding]; other site 225937005017 heterodimer interface [polypeptide binding]; other site 225937005018 phosphorylation loop region [posttranslational modification] 225937005019 malate:quinone oxidoreductase; Validated; Region: PRK05257 225937005020 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 225937005021 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 225937005022 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 225937005023 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 225937005024 PAS domain; Region: PAS_9; pfam13426 225937005025 putative active site [active] 225937005026 heme pocket [chemical binding]; other site 225937005027 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 225937005028 Transcriptional regulators [Transcription]; Region: MarR; COG1846 225937005029 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 225937005030 dimerization interface [polypeptide binding]; other site 225937005031 putative Zn2+ binding site [ion binding]; other site 225937005032 putative DNA binding site [nucleotide binding]; other site 225937005033 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 225937005034 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937005035 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 225937005036 substrate binding pocket [chemical binding]; other site 225937005037 dimerization interface [polypeptide binding]; other site 225937005038 Cupin; Region: Cupin_6; pfam12852 225937005039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937005040 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937005041 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937005042 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 225937005043 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 225937005044 hypothetical protein; Provisional; Region: PRK05409 225937005045 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 225937005046 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 225937005047 Predicted membrane protein [Function unknown]; Region: COG2259 225937005048 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 225937005049 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225937005050 catalytic residues [active] 225937005051 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 225937005052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937005053 DNA-binding site [nucleotide binding]; DNA binding site 225937005054 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 225937005055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937005056 homodimer interface [polypeptide binding]; other site 225937005057 catalytic residue [active] 225937005058 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 225937005059 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 225937005060 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 225937005061 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 225937005062 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 225937005063 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 225937005064 dimerization domain [polypeptide binding]; other site 225937005065 dimer interface [polypeptide binding]; other site 225937005066 catalytic residues [active] 225937005067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 225937005068 SnoaL-like domain; Region: SnoaL_2; pfam12680 225937005069 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 225937005070 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937005071 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 225937005072 DNA binding residues [nucleotide binding] 225937005073 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937005074 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937005075 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 225937005076 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937005077 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937005078 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225937005079 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225937005080 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 225937005081 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 225937005082 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 225937005083 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225937005084 catalytic residues [active] 225937005085 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 225937005086 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937005087 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 225937005088 substrate binding pocket [chemical binding]; other site 225937005089 dimerization interface [polypeptide binding]; other site 225937005090 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 225937005091 activation loop (A-loop); other site 225937005092 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 225937005093 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 225937005094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937005095 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 225937005096 dimerization interface [polypeptide binding]; other site 225937005097 substrate binding pocket [chemical binding]; other site 225937005098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 225937005099 ACT domain; Region: ACT_3; pfam10000 225937005100 Family description; Region: ACT_7; pfam13840 225937005101 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937005102 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937005103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937005104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937005105 NADH(P)-binding; Region: NAD_binding_10; pfam13460 225937005106 NAD(P) binding site [chemical binding]; other site 225937005107 active site 225937005108 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 225937005109 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 225937005110 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 225937005111 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937005112 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 225937005113 putative effector binding pocket; other site 225937005114 putative dimerization interface [polypeptide binding]; other site 225937005115 Predicted flavoprotein [General function prediction only]; Region: COG0431 225937005116 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 225937005117 Pirin-related protein [General function prediction only]; Region: COG1741 225937005118 Pirin; Region: Pirin; pfam02678 225937005119 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 225937005120 LysR family transcriptional regulator; Provisional; Region: PRK14997 225937005121 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937005122 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 225937005123 putative effector binding pocket; other site 225937005124 dimerization interface [polypeptide binding]; other site 225937005125 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 225937005126 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 225937005127 Cupin domain; Region: Cupin_2; cl17218 225937005128 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 225937005129 Predicted transcriptional regulators [Transcription]; Region: COG1733 225937005130 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 225937005131 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 225937005132 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937005133 DNA-binding site [nucleotide binding]; DNA binding site 225937005134 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 225937005135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937005136 homodimer interface [polypeptide binding]; other site 225937005137 catalytic residue [active] 225937005138 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 225937005139 4Fe-4S binding domain; Region: Fer4_5; pfam12801 225937005140 4Fe-4S binding domain; Region: Fer4_3; pfam12798 225937005141 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 225937005142 PAS domain; Region: PAS_9; pfam13426 225937005143 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 225937005144 putative active site [active] 225937005145 heme pocket [chemical binding]; other site 225937005146 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 225937005147 PAS domain; Region: PAS_9; pfam13426 225937005148 putative active site [active] 225937005149 heme pocket [chemical binding]; other site 225937005150 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937005151 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937005152 metal binding site [ion binding]; metal-binding site 225937005153 active site 225937005154 I-site; other site 225937005155 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 225937005156 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 225937005157 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 225937005158 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 225937005159 TrkA-N domain; Region: TrkA_N; pfam02254 225937005160 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 225937005161 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005162 Walker A motif; other site 225937005163 ATP binding site [chemical binding]; other site 225937005164 Walker B motif; other site 225937005165 arginine finger; other site 225937005166 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005167 Walker A motif; other site 225937005168 ATP binding site [chemical binding]; other site 225937005169 Walker B motif; other site 225937005170 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 225937005171 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 225937005172 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 225937005173 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 225937005174 hypothetical protein; Provisional; Region: PRK11019 225937005175 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 225937005176 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 225937005177 DNA binding residues [nucleotide binding] 225937005178 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 225937005179 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225937005180 putative active site [active] 225937005181 putative FMN binding site [chemical binding]; other site 225937005182 putative substrate binding site [chemical binding]; other site 225937005183 putative catalytic residue [active] 225937005184 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 225937005185 active site 225937005186 DNA binding site [nucleotide binding] 225937005187 Int/Topo IB signature motif; other site 225937005188 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 225937005189 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 225937005190 Protein of unknown function, DUF479; Region: DUF479; pfam04336 225937005191 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225937005192 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 225937005193 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 225937005194 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 225937005195 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 225937005196 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 225937005197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937005198 NAD(P) binding site [chemical binding]; other site 225937005199 active site 225937005200 PilZ domain; Region: PilZ; pfam07238 225937005201 4-alpha-glucanotransferase; Provisional; Region: PRK14508 225937005202 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 225937005203 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 225937005204 putative active site [active] 225937005205 catalytic site [active] 225937005206 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 225937005207 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 225937005208 ligand binding site; other site 225937005209 oligomer interface; other site 225937005210 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 225937005211 dimer interface [polypeptide binding]; other site 225937005212 N-terminal domain interface [polypeptide binding]; other site 225937005213 sulfate 1 binding site; other site 225937005214 glycogen branching enzyme; Provisional; Region: PRK12313 225937005215 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 225937005216 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 225937005217 active site 225937005218 catalytic site [active] 225937005219 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 225937005220 glycogen synthase; Provisional; Region: glgA; PRK00654 225937005221 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 225937005222 ADP-binding pocket [chemical binding]; other site 225937005223 homodimer interface [polypeptide binding]; other site 225937005224 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 225937005225 putative homodimer interface [polypeptide binding]; other site 225937005226 putative active site pocket [active] 225937005227 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 225937005228 putative hydrolase; Provisional; Region: PRK11460 225937005229 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225937005230 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 225937005231 putative acyl-acceptor binding pocket; other site 225937005232 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 225937005233 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 225937005234 ATP binding site [chemical binding]; other site 225937005235 putative Mg++ binding site [ion binding]; other site 225937005236 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 225937005237 nucleotide binding region [chemical binding]; other site 225937005238 ATP-binding site [chemical binding]; other site 225937005239 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 225937005240 HRDC domain; Region: HRDC; pfam00570 225937005241 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 225937005242 CoenzymeA binding site [chemical binding]; other site 225937005243 subunit interaction site [polypeptide binding]; other site 225937005244 PHB binding site; other site 225937005245 Cache domain; Region: Cache_1; pfam02743 225937005246 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937005247 dimerization interface [polypeptide binding]; other site 225937005248 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937005249 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937005250 dimer interface [polypeptide binding]; other site 225937005251 putative CheW interface [polypeptide binding]; other site 225937005252 Predicted amidohydrolase [General function prediction only]; Region: COG0388 225937005253 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 225937005254 putative active site [active] 225937005255 catalytic triad [active] 225937005256 putative dimer interface [polypeptide binding]; other site 225937005257 phosphatidylserine decarboxylase; Region: PLN02938 225937005258 Uncharacterized conserved protein [Function unknown]; Region: COG3743 225937005259 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 225937005260 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937005261 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 225937005262 Selenophosphate synthase [Amino acid transport and metabolism]; Region: SelD; COG0709 225937005263 dimerization interface [polypeptide binding]; other site 225937005264 putative ATP binding site [chemical binding]; other site 225937005265 putative glycosyltransferase, TIGR04348 family; Region: TIGR04348 225937005266 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 225937005267 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 225937005268 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 225937005269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937005270 Walker A/P-loop; other site 225937005271 ATP binding site [chemical binding]; other site 225937005272 Q-loop/lid; other site 225937005273 ABC transporter signature motif; other site 225937005274 Walker B; other site 225937005275 D-loop; other site 225937005276 H-loop/switch region; other site 225937005277 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 225937005278 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 225937005279 adhesin; Provisional; Region: PRK09752 225937005280 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 225937005281 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 225937005282 Walker A/P-loop; other site 225937005283 ATP binding site [chemical binding]; other site 225937005284 Q-loop/lid; other site 225937005285 ABC transporter signature motif; other site 225937005286 Walker B; other site 225937005287 D-loop; other site 225937005288 H-loop/switch region; other site 225937005289 ABC-2 type transporter; Region: ABC2_membrane; cl17235 225937005290 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 225937005291 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 225937005292 enoyl-CoA hydratase; Validated; Region: PRK08139 225937005293 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 225937005294 substrate binding site [chemical binding]; other site 225937005295 oxyanion hole (OAH) forming residues; other site 225937005296 trimer interface [polypeptide binding]; other site 225937005297 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 225937005298 enoyl-CoA hydratase; Provisional; Region: PRK09245 225937005299 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 225937005300 substrate binding site [chemical binding]; other site 225937005301 oxyanion hole (OAH) forming residues; other site 225937005302 trimer interface [polypeptide binding]; other site 225937005303 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 225937005304 active site 225937005305 catalytic triad [active] 225937005306 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005307 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 225937005308 Walker A motif; other site 225937005309 ATP binding site [chemical binding]; other site 225937005310 Walker B motif; other site 225937005311 arginine finger; other site 225937005312 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225937005313 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 225937005314 S-adenosylmethionine binding site [chemical binding]; other site 225937005315 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 225937005316 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 225937005317 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 225937005318 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 225937005319 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225937005320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937005321 Walker A/P-loop; other site 225937005322 ATP binding site [chemical binding]; other site 225937005323 Q-loop/lid; other site 225937005324 ABC transporter signature motif; other site 225937005325 Walker B; other site 225937005326 D-loop; other site 225937005327 H-loop/switch region; other site 225937005328 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 225937005329 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 225937005330 Walker A/P-loop; other site 225937005331 ATP binding site [chemical binding]; other site 225937005332 Q-loop/lid; other site 225937005333 ABC transporter signature motif; other site 225937005334 Walker B; other site 225937005335 D-loop; other site 225937005336 H-loop/switch region; other site 225937005337 Uncharacterized conserved protein [Function unknown]; Region: COG3268 225937005338 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 225937005339 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 225937005340 S-adenosylmethionine binding site [chemical binding]; other site 225937005341 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 225937005342 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 225937005343 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 225937005344 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 225937005345 Ligand binding site [chemical binding]; other site 225937005346 Electron transfer flavoprotein domain; Region: ETF; pfam01012 225937005347 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 225937005348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937005349 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 225937005350 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 225937005351 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225937005352 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 225937005353 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 225937005354 Radical SAM superfamily; Region: Radical_SAM; pfam04055 225937005355 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 225937005356 FeS/SAM binding site; other site 225937005357 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 225937005358 catalytic core [active] 225937005359 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 225937005360 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 225937005361 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 225937005362 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 225937005363 anti sigma factor interaction site; other site 225937005364 regulatory phosphorylation site [posttranslational modification]; other site 225937005365 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 225937005366 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 225937005367 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 225937005368 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 225937005369 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937005370 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 225937005371 SnoaL-like domain; Region: SnoaL_2; pfam12680 225937005372 short chain dehydrogenase; Provisional; Region: PRK06101 225937005373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937005374 NAD(P) binding site [chemical binding]; other site 225937005375 active site 225937005376 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 225937005377 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937005378 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 225937005379 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 225937005380 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; cl17173 225937005381 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 225937005382 S-adenosylmethionine binding site [chemical binding]; other site 225937005383 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 225937005384 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 225937005385 putative catalytic site [active] 225937005386 putative phosphate binding site [ion binding]; other site 225937005387 active site 225937005388 metal binding site A [ion binding]; metal-binding site 225937005389 DNA binding site [nucleotide binding] 225937005390 putative AP binding site [nucleotide binding]; other site 225937005391 putative metal binding site B [ion binding]; other site 225937005392 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937005393 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937005394 Bacterial transcriptional repressor; Region: TetR; pfam13972 225937005395 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 225937005396 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 225937005397 Predicted transporter component [General function prediction only]; Region: COG2391 225937005398 Predicted transporter component [General function prediction only]; Region: COG2391 225937005399 Sulphur transport; Region: Sulf_transp; pfam04143 225937005400 Putative phosphatase (DUF442); Region: DUF442; cl17385 225937005401 ferrochelatase; Reviewed; Region: hemH; PRK00035 225937005402 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 225937005403 C-terminal domain interface [polypeptide binding]; other site 225937005404 active site 225937005405 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 225937005406 active site 225937005407 N-terminal domain interface [polypeptide binding]; other site 225937005408 YccA-like proteins; Region: YccA_like; cd10433 225937005409 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 225937005410 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 225937005411 DsrE/DsrF-like family; Region: DrsE; cl00672 225937005412 DsrH like protein; Region: DsrH; cl17347 225937005413 DsrC like protein; Region: DsrC; pfam04358 225937005414 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 225937005415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 225937005416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 225937005417 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 225937005418 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 225937005419 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 225937005420 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 225937005421 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 225937005422 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 225937005423 substrate binding pocket [chemical binding]; other site 225937005424 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 225937005425 B12 binding site [chemical binding]; other site 225937005426 cobalt ligand [ion binding]; other site 225937005427 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 225937005428 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 225937005429 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 225937005430 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 225937005431 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 225937005432 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 225937005433 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 225937005434 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 225937005435 NADP binding site [chemical binding]; other site 225937005436 dimer interface [polypeptide binding]; other site 225937005437 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 225937005438 putative inner membrane peptidase; Provisional; Region: PRK11778 225937005439 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 225937005440 tandem repeat interface [polypeptide binding]; other site 225937005441 oligomer interface [polypeptide binding]; other site 225937005442 active site residues [active] 225937005443 SCP-2 sterol transfer family; Region: SCP2; pfam02036 225937005444 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 225937005445 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 225937005446 active site 225937005447 catalytic site [active] 225937005448 substrate binding site [chemical binding]; other site 225937005449 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 225937005450 RNA/DNA hybrid binding site [nucleotide binding]; other site 225937005451 active site 225937005452 Methyltransferase domain; Region: Methyltransf_11; pfam08241 225937005453 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 225937005454 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...; Region: LT_GEWL; cd00254 225937005455 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 225937005456 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225937005457 catalytic residue [active] 225937005458 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225937005459 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 225937005460 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225937005461 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 225937005462 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225937005463 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 225937005464 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 225937005465 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 225937005466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937005467 dimer interface [polypeptide binding]; other site 225937005468 conserved gate region; other site 225937005469 putative PBP binding loops; other site 225937005470 ABC-ATPase subunit interface; other site 225937005471 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 225937005472 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937005473 dimer interface [polypeptide binding]; other site 225937005474 conserved gate region; other site 225937005475 ABC-ATPase subunit interface; other site 225937005476 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 225937005477 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 225937005478 Walker A/P-loop; other site 225937005479 ATP binding site [chemical binding]; other site 225937005480 Q-loop/lid; other site 225937005481 ABC transporter signature motif; other site 225937005482 Walker B; other site 225937005483 D-loop; other site 225937005484 H-loop/switch region; other site 225937005485 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 225937005486 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 225937005487 Walker A/P-loop; other site 225937005488 ATP binding site [chemical binding]; other site 225937005489 Q-loop/lid; other site 225937005490 ABC transporter signature motif; other site 225937005491 Walker B; other site 225937005492 D-loop; other site 225937005493 H-loop/switch region; other site 225937005494 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 225937005495 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 225937005496 NAD binding site [chemical binding]; other site 225937005497 homotetramer interface [polypeptide binding]; other site 225937005498 homodimer interface [polypeptide binding]; other site 225937005499 substrate binding site [chemical binding]; other site 225937005500 active site 225937005501 PilZ domain; Region: PilZ; pfam07238 225937005502 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 225937005503 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 225937005504 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 225937005505 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 225937005506 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 225937005507 active site 225937005508 SAM binding site [chemical binding]; other site 225937005509 homodimer interface [polypeptide binding]; other site 225937005510 seryl-tRNA synthetase; Provisional; Region: PRK05431 225937005511 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 225937005512 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 225937005513 dimer interface [polypeptide binding]; other site 225937005514 active site 225937005515 motif 1; other site 225937005516 motif 2; other site 225937005517 motif 3; other site 225937005518 recombination factor protein RarA; Reviewed; Region: PRK13342 225937005519 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005520 Walker A motif; other site 225937005521 ATP binding site [chemical binding]; other site 225937005522 Walker B motif; other site 225937005523 arginine finger; other site 225937005524 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 225937005525 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 225937005526 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 225937005527 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 225937005528 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 225937005529 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 225937005530 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 225937005531 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 225937005532 homodimer interface [polypeptide binding]; other site 225937005533 substrate-cofactor binding pocket; other site 225937005534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937005535 catalytic residue [active] 225937005536 amidophosphoribosyltransferase; Provisional; Region: PRK09246 225937005537 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 225937005538 active site 225937005539 tetramer interface [polypeptide binding]; other site 225937005540 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225937005541 active site 225937005542 Colicin V production protein; Region: Colicin_V; cl00567 225937005543 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 225937005544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 225937005545 Sporulation related domain; Region: SPOR; pfam05036 225937005546 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 225937005547 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225937005548 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 225937005549 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 225937005550 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 225937005551 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 225937005552 substrate binding site [chemical binding]; other site 225937005553 active site 225937005554 catalytic residues [active] 225937005555 heterodimer interface [polypeptide binding]; other site 225937005556 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 225937005557 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 225937005558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937005559 catalytic residue [active] 225937005560 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...; Region: PRAI; cd00405 225937005561 active site 225937005562 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 225937005563 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 225937005564 dimerization interface 3.5A [polypeptide binding]; other site 225937005565 active site 225937005566 FimV N-terminal domain; Region: FimV_core; TIGR03505 225937005567 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 225937005568 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 225937005569 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 225937005570 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 225937005571 tartrate dehydrogenase; Region: TTC; TIGR02089 225937005572 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 225937005573 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 225937005574 substrate binding site [chemical binding]; other site 225937005575 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 225937005576 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 225937005577 substrate binding site [chemical binding]; other site 225937005578 ligand binding site [chemical binding]; other site 225937005579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937005580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937005581 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 225937005582 dimerization interface [polypeptide binding]; other site 225937005583 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 225937005584 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 225937005585 MFS_1 like family; Region: MFS_1_like; pfam12832 225937005586 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 225937005587 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 225937005588 Tetramer interface [polypeptide binding]; other site 225937005589 active site 225937005590 FMN-binding site [chemical binding]; other site 225937005591 HemK family putative methylases; Region: hemK_fam; TIGR00536 225937005592 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 225937005593 S-adenosylmethionine binding site [chemical binding]; other site 225937005594 hypothetical protein; Provisional; Region: PRK10279 225937005595 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 225937005596 active site 225937005597 nucleophile elbow; other site 225937005598 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225937005599 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225937005600 PGAP1-like protein; Region: PGAP1; pfam07819 225937005601 PilZ domain; Region: PilZ; cl01260 225937005602 DNA polymerase III subunit delta'; Validated; Region: PRK05707 225937005603 DNA polymerase III subunit delta'; Validated; Region: PRK08485 225937005604 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 225937005605 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 225937005606 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 225937005607 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 225937005608 Protein of unknown function DUF58; Region: DUF58; pfam01882 225937005609 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 225937005610 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 225937005611 chorismate binding enzyme; Region: Chorismate_bind; cl10555 225937005612 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 225937005613 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 225937005614 motif II; other site 225937005615 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 225937005616 Active Sites [active] 225937005617 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 225937005618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937005619 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 225937005620 substrate binding site [chemical binding]; other site 225937005621 dimerization interface [polypeptide binding]; other site 225937005622 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 225937005623 AAA ATPase domain; Region: AAA_16; pfam13191 225937005624 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937005625 DNA binding residues [nucleotide binding] 225937005626 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 225937005627 DEAD/DEAH box helicase; Region: DEAD; pfam00270 225937005628 ATP binding site [chemical binding]; other site 225937005629 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 225937005630 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 225937005631 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005632 Walker A motif; other site 225937005633 ATP binding site [chemical binding]; other site 225937005634 Walker B motif; other site 225937005635 arginine finger; other site 225937005636 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 225937005637 putative active site [active] 225937005638 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 225937005639 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 225937005640 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 225937005641 active site 225937005642 nucleophile elbow; other site 225937005643 VacJ like lipoprotein; Region: VacJ; cl01073 225937005644 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 225937005645 active site 225937005646 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 225937005647 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 225937005648 dimer interface [polypeptide binding]; other site 225937005649 active site 225937005650 CoA binding pocket [chemical binding]; other site 225937005651 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 225937005652 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 225937005653 ATP binding site [chemical binding]; other site 225937005654 putative Mg++ binding site [ion binding]; other site 225937005655 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 225937005656 nucleotide binding region [chemical binding]; other site 225937005657 ATP-binding site [chemical binding]; other site 225937005658 Helicase associated domain (HA2); Region: HA2; pfam04408 225937005659 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 225937005660 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 225937005661 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 225937005662 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 225937005663 acyl-activating enzyme (AAE) consensus motif; other site 225937005664 putative AMP binding site [chemical binding]; other site 225937005665 putative active site [active] 225937005666 putative CoA binding site [chemical binding]; other site 225937005667 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 225937005668 dimer interaction site [polypeptide binding]; other site 225937005669 substrate-binding tunnel; other site 225937005670 active site 225937005671 catalytic site [active] 225937005672 substrate binding site [chemical binding]; other site 225937005673 Gram-negative bacterial tonB protein; Region: TonB; cl10048 225937005674 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225937005675 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225937005676 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 225937005677 TPR repeat; Region: TPR_11; pfam13414 225937005678 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 225937005679 binding surface 225937005680 TPR motif; other site 225937005681 TPR repeat; Region: TPR_11; pfam13414 225937005682 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 225937005683 TPR motif; other site 225937005684 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 225937005685 binding surface 225937005686 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 225937005687 binding surface 225937005688 TPR motif; other site 225937005689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 225937005690 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005691 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 225937005692 Walker A motif; other site 225937005693 ATP binding site [chemical binding]; other site 225937005694 Walker B motif; other site 225937005695 arginine finger; other site 225937005696 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 225937005697 metal ion-dependent adhesion site (MIDAS); other site 225937005698 TIGR03503 family protein; Region: TIGR03503 225937005699 hypothetical protein; Provisional; Region: PRK05170 225937005700 YcgL domain; Region: YcgL; pfam05166 225937005701 ribonuclease D; Region: rnd; TIGR01388 225937005702 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 225937005703 catalytic site [active] 225937005704 putative active site [active] 225937005705 putative substrate binding site [chemical binding]; other site 225937005706 HRDC domain; Region: HRDC; pfam00570 225937005707 recombination protein RecR; Reviewed; Region: recR; PRK00076 225937005708 RecR protein; Region: RecR; pfam02132 225937005709 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 225937005710 putative active site [active] 225937005711 putative metal-binding site [ion binding]; other site 225937005712 tetramer interface [polypeptide binding]; other site 225937005713 hypothetical protein; Validated; Region: PRK00153 225937005714 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 225937005715 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005716 Walker A motif; other site 225937005717 ATP binding site [chemical binding]; other site 225937005718 Walker B motif; other site 225937005719 arginine finger; other site 225937005720 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 225937005721 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 225937005722 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 225937005723 active site 225937005724 phosphate binding residues; other site 225937005725 catalytic residues [active] 225937005726 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 225937005727 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225937005728 putative acyl-acceptor binding pocket; other site 225937005729 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 225937005730 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 225937005731 putative NAD(P) binding site [chemical binding]; other site 225937005732 active site 225937005733 putative substrate binding site [chemical binding]; other site 225937005734 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 225937005735 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 225937005736 ATP binding site [chemical binding]; other site 225937005737 Mg2+ binding site [ion binding]; other site 225937005738 G-X-G motif; other site 225937005739 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 225937005740 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937005741 active site 225937005742 phosphorylation site [posttranslational modification] 225937005743 intermolecular recognition site; other site 225937005744 dimerization interface [polypeptide binding]; other site 225937005745 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005746 Walker A motif; other site 225937005747 ATP binding site [chemical binding]; other site 225937005748 Walker B motif; other site 225937005749 arginine finger; other site 225937005750 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937005751 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 225937005752 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 225937005753 TPR motif; other site 225937005754 binding surface 225937005755 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 225937005756 binding surface 225937005757 TPR motif; other site 225937005758 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 225937005759 binding surface 225937005760 TPR motif; other site 225937005761 Domain of unknown function (DUF4114); Region: DUF4114; pfam13448 225937005762 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 225937005763 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 225937005764 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 225937005765 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 225937005766 Family description; Region: VCBS; pfam13517 225937005767 Family description; Region: VCBS; pfam13517 225937005768 Family description; Region: VCBS; pfam13517 225937005769 Family description; Region: VCBS; pfam13517 225937005770 Family description; Region: VCBS; pfam13517 225937005771 Family description; Region: VCBS; pfam13517 225937005772 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 225937005773 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 225937005774 active site 225937005775 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 225937005776 extended (e) SDRs; Region: SDR_e; cd08946 225937005777 NAD(P) binding site [chemical binding]; other site 225937005778 active site 225937005779 substrate binding site [chemical binding]; other site 225937005780 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 225937005781 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 225937005782 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 225937005783 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 225937005784 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 225937005785 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 225937005786 active site 225937005787 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 225937005788 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 225937005789 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 225937005790 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 225937005791 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 225937005792 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 225937005793 trimer interface [polypeptide binding]; other site 225937005794 active site 225937005795 substrate binding site [chemical binding]; other site 225937005796 CoA binding site [chemical binding]; other site 225937005797 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 225937005798 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 225937005799 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 225937005800 active site 225937005801 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 225937005802 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937005803 PA14 domain; Region: PA14; cl08459 225937005804 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 225937005805 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 225937005806 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 225937005807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937005808 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 225937005809 putative ADP-binding pocket [chemical binding]; other site 225937005810 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 225937005811 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 225937005812 active site 225937005813 dimer interface [polypeptide binding]; other site 225937005814 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 225937005815 Ligand Binding Site [chemical binding]; other site 225937005816 Molecular Tunnel; other site 225937005817 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937005818 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 225937005819 putative ADP-binding pocket [chemical binding]; other site 225937005820 O-Antigen ligase; Region: Wzy_C; cl04850 225937005821 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 225937005822 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 225937005823 DXD motif; other site 225937005824 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 225937005825 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 225937005826 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 225937005827 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 225937005828 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 225937005829 putative active site [active] 225937005830 putative catalytic site [active] 225937005831 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 225937005832 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 225937005833 Chain length determinant protein; Region: Wzz; cl15801 225937005834 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 225937005835 FlxA-like protein; Region: FlxA; pfam14282 225937005836 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 225937005837 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 225937005838 SLBB domain; Region: SLBB; pfam10531 225937005839 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 225937005840 Bacterial sugar transferase; Region: Bac_transf; pfam02397 225937005841 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 225937005842 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 225937005843 putative active site [active] 225937005844 putative catalytic site [active] 225937005845 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 225937005846 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005847 Walker A motif; other site 225937005848 ATP binding site [chemical binding]; other site 225937005849 Walker B motif; other site 225937005850 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 225937005851 2-methylcitrate dehydratase; Region: prpD; TIGR02330 225937005852 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 225937005853 aconitate hydratase; Validated; Region: PRK09277 225937005854 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 225937005855 substrate binding site [chemical binding]; other site 225937005856 ligand binding site [chemical binding]; other site 225937005857 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 225937005858 substrate binding site [chemical binding]; other site 225937005859 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 225937005860 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 225937005861 dimer interface [polypeptide binding]; other site 225937005862 active site 225937005863 citrylCoA binding site [chemical binding]; other site 225937005864 oxalacetate/citrate binding site [chemical binding]; other site 225937005865 coenzyme A binding site [chemical binding]; other site 225937005866 catalytic triad [active] 225937005867 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 225937005868 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 225937005869 tetramer interface [polypeptide binding]; other site 225937005870 active site 225937005871 Mg2+/Mn2+ binding site [ion binding]; other site 225937005872 Transcriptional regulators [Transcription]; Region: GntR; COG1802 225937005873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937005874 DNA-binding site [nucleotide binding]; DNA binding site 225937005875 FCD domain; Region: FCD; pfam07729 225937005876 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 225937005877 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 225937005878 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 225937005879 active site 225937005880 tetramer interface; other site 225937005881 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 225937005882 RibD C-terminal domain; Region: RibD_C; cl17279 225937005883 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 225937005884 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937005885 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 225937005886 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 225937005887 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 225937005888 putative NAD(P) binding site [chemical binding]; other site 225937005889 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 225937005890 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 225937005891 YceI-like domain; Region: YceI; smart00867 225937005892 EamA-like transporter family; Region: EamA; pfam00892 225937005893 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 225937005894 EamA-like transporter family; Region: EamA; pfam00892 225937005895 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 225937005896 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225937005897 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 225937005898 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 225937005899 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 225937005900 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 225937005901 tandem repeat interface [polypeptide binding]; other site 225937005902 oligomer interface [polypeptide binding]; other site 225937005903 active site residues [active] 225937005904 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 225937005905 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 225937005906 gpW; Region: gpW; pfam02831 225937005907 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 225937005908 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 225937005909 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 225937005910 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 225937005911 active site 225937005912 metal binding site [ion binding]; metal-binding site 225937005913 interdomain interaction site; other site 225937005914 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 225937005915 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 225937005916 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 225937005917 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 225937005918 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 225937005919 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 225937005920 active site 225937005921 substrate binding site [chemical binding]; other site 225937005922 catalytic site [active] 225937005923 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 225937005924 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 225937005925 homodimer interface [polypeptide binding]; other site 225937005926 metal binding site [ion binding]; metal-binding site 225937005927 Helix-turn-helix domain; Region: HTH_17; pfam12728 225937005928 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 225937005929 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 225937005930 active site 225937005931 DNA binding site [nucleotide binding] 225937005932 Int/Topo IB signature motif; other site 225937005933 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937005934 dimer interface [polypeptide binding]; other site 225937005935 phosphorylation site [posttranslational modification] 225937005936 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 225937005937 ATP binding site [chemical binding]; other site 225937005938 Mg2+ binding site [ion binding]; other site 225937005939 G-X-G motif; other site 225937005940 Response regulator receiver domain; Region: Response_reg; pfam00072 225937005941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937005942 active site 225937005943 phosphorylation site [posttranslational modification] 225937005944 intermolecular recognition site; other site 225937005945 dimerization interface [polypeptide binding]; other site 225937005946 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937005947 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 225937005948 Walker A motif; other site 225937005949 ATP binding site [chemical binding]; other site 225937005950 Walker B motif; other site 225937005951 arginine finger; other site 225937005952 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937005953 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225937005954 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 225937005955 putative ligand binding site [chemical binding]; other site 225937005956 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225937005957 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 225937005958 putative ligand binding site [chemical binding]; other site 225937005959 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 225937005960 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 225937005961 TM-ABC transporter signature motif; other site 225937005962 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 225937005963 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 225937005964 TM-ABC transporter signature motif; other site 225937005965 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 225937005966 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 225937005967 Walker A/P-loop; other site 225937005968 ATP binding site [chemical binding]; other site 225937005969 Q-loop/lid; other site 225937005970 ABC transporter signature motif; other site 225937005971 Walker B; other site 225937005972 D-loop; other site 225937005973 H-loop/switch region; other site 225937005974 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 225937005975 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 225937005976 Walker A/P-loop; other site 225937005977 ATP binding site [chemical binding]; other site 225937005978 Q-loop/lid; other site 225937005979 ABC transporter signature motif; other site 225937005980 Walker B; other site 225937005981 D-loop; other site 225937005982 H-loop/switch region; other site 225937005983 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 225937005984 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 225937005985 putative active site [active] 225937005986 metal binding site [ion binding]; metal-binding site 225937005987 succinic semialdehyde dehydrogenase; Region: PLN02278 225937005988 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 225937005989 tetramerization interface [polypeptide binding]; other site 225937005990 NAD(P) binding site [chemical binding]; other site 225937005991 catalytic residues [active] 225937005992 Protein of unknown function, DUF606; Region: DUF606; pfam04657 225937005993 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 225937005994 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 225937005995 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 225937005996 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 225937005997 putative NAD(P) binding site [chemical binding]; other site 225937005998 active site 225937005999 putative substrate binding site [chemical binding]; other site 225937006000 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 225937006001 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 225937006002 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 225937006003 ATP binding site [chemical binding]; other site 225937006004 active site 225937006005 substrate binding site [chemical binding]; other site 225937006006 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 225937006007 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 225937006008 dihydrodipicolinate synthase; Region: dapA; TIGR00674 225937006009 dimer interface [polypeptide binding]; other site 225937006010 active site 225937006011 catalytic residue [active] 225937006012 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 225937006013 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 225937006014 catalytic triad [active] 225937006015 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 225937006016 Domain of unknown function DUF20; Region: UPF0118; pfam01594 225937006017 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 225937006018 CPxP motif; other site 225937006019 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 225937006020 Peptidase family M48; Region: Peptidase_M48; cl12018 225937006021 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 225937006022 binding surface 225937006023 TPR motif; other site 225937006024 quinolinate synthetase; Provisional; Region: PRK09375 225937006025 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 225937006026 Tetratricopeptide repeat; Region: TPR_6; pfam13174 225937006027 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937006028 ligand binding site [chemical binding]; other site 225937006029 translocation protein TolB; Provisional; Region: tolB; PRK00178 225937006030 TolB amino-terminal domain; Region: TolB_N; pfam04052 225937006031 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225937006032 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225937006033 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225937006034 TolA protein; Region: tolA_full; TIGR02794 225937006035 TonB C terminal; Region: TonB_2; pfam13103 225937006036 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 225937006037 TolR protein; Region: tolR; TIGR02801 225937006038 TolQ protein; Region: tolQ; TIGR02796 225937006039 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 225937006040 active site 225937006041 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 225937006042 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 225937006043 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006044 Walker A motif; other site 225937006045 ATP binding site [chemical binding]; other site 225937006046 Walker B motif; other site 225937006047 arginine finger; other site 225937006048 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 225937006049 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 225937006050 RuvA N terminal domain; Region: RuvA_N; pfam01330 225937006051 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 225937006052 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...; Region: RuvC_resolvase; cd00529 225937006053 active site 225937006054 putative DNA-binding cleft [nucleotide binding]; other site 225937006055 dimer interface [polypeptide binding]; other site 225937006056 hypothetical protein; Validated; Region: PRK00110 225937006057 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 225937006058 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 225937006059 dimer interface [polypeptide binding]; other site 225937006060 anticodon binding site; other site 225937006061 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...; Region: AspRS_core; cd00777 225937006062 homodimer interface [polypeptide binding]; other site 225937006063 motif 1; other site 225937006064 active site 225937006065 motif 2; other site 225937006066 GAD domain; Region: GAD; pfam02938 225937006067 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 225937006068 active site 225937006069 motif 3; other site 225937006070 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 225937006071 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937006072 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 225937006073 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 225937006074 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 225937006075 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 225937006076 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 225937006077 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 225937006078 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 225937006079 NAD binding site [chemical binding]; other site 225937006080 homodimer interface [polypeptide binding]; other site 225937006081 active site 225937006082 substrate binding site [chemical binding]; other site 225937006083 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 225937006084 nucleoside/Zn binding site; other site 225937006085 dimer interface [polypeptide binding]; other site 225937006086 catalytic motif [active] 225937006087 GMP synthase; Reviewed; Region: guaA; PRK00074 225937006088 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 225937006089 AMP/PPi binding site [chemical binding]; other site 225937006090 candidate oxyanion hole; other site 225937006091 catalytic triad [active] 225937006092 potential glutamine specificity residues [chemical binding]; other site 225937006093 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 225937006094 ATP Binding subdomain [chemical binding]; other site 225937006095 Ligand Binding sites [chemical binding]; other site 225937006096 Dimerization subdomain; other site 225937006097 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 225937006098 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; cl17186 225937006099 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...; Region: CBS_pair_IMPDH; cd04601 225937006100 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...; Region: IMPDH; cd00381 225937006101 active site 225937006102 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 225937006103 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 225937006104 generic binding surface II; other site 225937006105 generic binding surface I; other site 225937006106 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 225937006107 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 225937006108 acyl-activating enzyme (AAE) consensus motif; other site 225937006109 putative AMP binding site [chemical binding]; other site 225937006110 putative active site [active] 225937006111 putative CoA binding site [chemical binding]; other site 225937006112 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...; Region: CSP_CDS; cd04458 225937006113 DNA-binding site [nucleotide binding]; DNA binding site 225937006114 RNA-binding motif; other site 225937006115 2-isopropylmalate synthase; Validated; Region: PRK03739 225937006116 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 225937006117 active site 225937006118 catalytic residues [active] 225937006119 metal binding site [ion binding]; metal-binding site 225937006120 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 225937006121 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 225937006122 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 225937006123 putative DNA binding site [nucleotide binding]; other site 225937006124 putative Zn2+ binding site [ion binding]; other site 225937006125 AsnC family; Region: AsnC_trans_reg; pfam01037 225937006126 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937006127 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937006128 prolyl-tRNA synthetase; Provisional; Region: PRK09194 225937006129 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...; Region: ProRS_core_prok; cd00779 225937006130 dimer interface [polypeptide binding]; other site 225937006131 motif 1; other site 225937006132 active site 225937006133 motif 2; other site 225937006134 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 225937006135 putative deacylase active site [active] 225937006136 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 225937006137 active site 225937006138 motif 3; other site 225937006139 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 225937006140 anticodon binding site; other site 225937006141 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 225937006142 FAD binding domain; Region: FAD_binding_4; pfam01565 225937006143 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 225937006144 Low molecular weight phosphatase family; Region: LMWPc; cd00115 225937006145 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 225937006146 active site 225937006147 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 225937006148 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 225937006149 Ligand binding site; other site 225937006150 oligomer interface; other site 225937006151 Uncharacterized conserved protein [Function unknown]; Region: COG2835 225937006152 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 225937006153 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 225937006154 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 225937006155 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225937006156 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 225937006157 Walker A/P-loop; other site 225937006158 ATP binding site [chemical binding]; other site 225937006159 Q-loop/lid; other site 225937006160 ABC transporter signature motif; other site 225937006161 Walker B; other site 225937006162 D-loop; other site 225937006163 H-loop/switch region; other site 225937006164 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 225937006165 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225937006166 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 225937006167 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 225937006168 Competence protein; Region: Competence; pfam03772 225937006169 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 225937006170 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 225937006171 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 225937006172 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225937006173 Walker A/P-loop; other site 225937006174 ATP binding site [chemical binding]; other site 225937006175 Q-loop/lid; other site 225937006176 ABC transporter signature motif; other site 225937006177 Walker B; other site 225937006178 D-loop; other site 225937006179 H-loop/switch region; other site 225937006180 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 225937006181 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225937006182 FtsX-like permease family; Region: FtsX; pfam02687 225937006183 PilZ domain; Region: PilZ; pfam07238 225937006184 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 225937006185 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 225937006186 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 225937006187 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 225937006188 putative active site; other site 225937006189 catalytic triad [active] 225937006190 putative dimer interface [polypeptide binding]; other site 225937006191 MoxR-like ATPases [General function prediction only]; Region: COG0714 225937006192 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006193 Walker A motif; other site 225937006194 ATP binding site [chemical binding]; other site 225937006195 Walker B motif; other site 225937006196 arginine finger; other site 225937006197 thioredoxin reductase; Provisional; Region: PRK10262 225937006198 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937006199 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937006200 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 225937006201 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 225937006202 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 225937006203 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 225937006204 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 225937006205 rRNA binding site [nucleotide binding]; other site 225937006206 predicted 30S ribosome binding site; other site 225937006207 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 225937006208 Clp amino terminal domain; Region: Clp_N; pfam02861 225937006209 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006210 Walker A motif; other site 225937006211 ATP binding site [chemical binding]; other site 225937006212 Walker B motif; other site 225937006213 arginine finger; other site 225937006214 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006215 Walker A motif; other site 225937006216 ATP binding site [chemical binding]; other site 225937006217 Walker B motif; other site 225937006218 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 225937006219 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 225937006220 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...; Region: CSP_CDS; cd04458 225937006221 DNA-binding site [nucleotide binding]; DNA binding site 225937006222 RNA-binding motif; other site 225937006223 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 225937006224 pseudouridine synthase; Region: TIGR00093 225937006225 active site 225937006226 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 225937006227 nudix motif; other site 225937006228 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 225937006229 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 225937006230 Ligand Binding Site [chemical binding]; other site 225937006231 putative lysogenization regulator; Reviewed; Region: PRK00218 225937006232 adenylosuccinate lyase; Provisional; Region: PRK09285 225937006233 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 225937006234 tetramer interface [polypeptide binding]; other site 225937006235 active site 225937006236 Uncharacterized conserved protein [Function unknown]; Region: COG2850 225937006237 Cupin-like domain; Region: Cupin_8; pfam13621 225937006238 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 225937006239 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937006240 Coenzyme A binding pocket [chemical binding]; other site 225937006241 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937006242 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937006243 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 225937006244 substrate binding pocket [chemical binding]; other site 225937006245 dimerization interface [polypeptide binding]; other site 225937006246 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 225937006247 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937006248 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937006249 dimer interface [polypeptide binding]; other site 225937006250 phosphorylation site [posttranslational modification] 225937006251 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 225937006252 ATP binding site [chemical binding]; other site 225937006253 Mg2+ binding site [ion binding]; other site 225937006254 G-X-G motif; other site 225937006255 Response regulator receiver domain; Region: Response_reg; pfam00072 225937006256 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937006257 active site 225937006258 phosphorylation site [posttranslational modification] 225937006259 intermolecular recognition site; other site 225937006260 dimerization interface [polypeptide binding]; other site 225937006261 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 225937006262 catalytic residues [active] 225937006263 dimer interface [polypeptide binding]; other site 225937006264 aminotransferase AlaT; Validated; Region: PRK09265 225937006265 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 225937006266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937006267 homodimer interface [polypeptide binding]; other site 225937006268 catalytic residue [active] 225937006269 heat shock protein HtpX; Provisional; Region: PRK05457 225937006270 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 225937006271 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 225937006272 ligand binding site [chemical binding]; other site 225937006273 NAD binding site [chemical binding]; other site 225937006274 catalytic site [active] 225937006275 homodimer interface [polypeptide binding]; other site 225937006276 helicase 45; Provisional; Region: PTZ00424 225937006277 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 225937006278 ATP binding site [chemical binding]; other site 225937006279 Mg++ binding site [ion binding]; other site 225937006280 motif III; other site 225937006281 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 225937006282 nucleotide binding region [chemical binding]; other site 225937006283 ATP-binding site [chemical binding]; other site 225937006284 Protein of unknown function, DUF462; Region: DUF462; pfam04315 225937006285 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 225937006286 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 225937006287 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 225937006288 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 225937006289 DsbD alpha interface [polypeptide binding]; other site 225937006290 catalytic residues [active] 225937006291 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 225937006292 CPxP motif; other site 225937006293 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 225937006294 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 225937006295 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 225937006296 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 225937006297 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937006298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937006299 metal binding site [ion binding]; metal-binding site 225937006300 active site 225937006301 I-site; other site 225937006302 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 225937006303 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 reduction...; Region: cbb3_Oxidase_I; cd01661 225937006304 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 225937006305 Low-spin heme binding site [chemical binding]; other site 225937006306 Putative water exit pathway; other site 225937006307 Binuclear center (active site) [active] 225937006308 Putative proton exit pathway; other site 225937006309 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 225937006310 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 225937006311 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 O2...; Region: cbb3_Oxidase_CcoQ; cd01324 225937006312 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 225937006313 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 225937006314 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 225937006315 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 225937006316 4Fe-4S binding domain; Region: Fer4_5; pfam12801 225937006317 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 225937006318 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 225937006319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 225937006320 FixH; Region: FixH; pfam05751 225937006321 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 225937006322 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 225937006323 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 225937006324 metal-binding site [ion binding] 225937006325 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 225937006326 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 225937006327 motif II; other site 225937006328 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 225937006329 Family description; Region: DsbD_2; pfam13386 225937006330 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 225937006331 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 225937006332 Ligand Binding Site [chemical binding]; other site 225937006333 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937006334 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937006335 DNA-J related protein; Region: DNAJ_related; pfam12339 225937006336 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 225937006337 HSP70 interaction site [polypeptide binding]; other site 225937006338 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 225937006339 putative active site [active] 225937006340 putative metal binding site [ion binding]; other site 225937006341 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 225937006342 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 225937006343 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 225937006344 putative active site [active] 225937006345 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 225937006346 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 225937006347 transmembrane helices; other site 225937006348 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 225937006349 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 225937006350 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 225937006351 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 225937006352 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937006353 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937006354 Protein of unknown function (DUF3714); Region: DUF3714; pfam12508 225937006355 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225937006356 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 225937006357 FtsX-like permease family; Region: FtsX; pfam02687 225937006358 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225937006359 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 225937006360 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225937006361 Walker A/P-loop; other site 225937006362 ATP binding site [chemical binding]; other site 225937006363 Q-loop/lid; other site 225937006364 ABC transporter signature motif; other site 225937006365 Walker B; other site 225937006366 D-loop; other site 225937006367 H-loop/switch region; other site 225937006368 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 225937006369 Phasin protein; Region: Phasin_2; cl11491 225937006370 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 225937006371 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 225937006372 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 225937006373 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 225937006374 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 225937006375 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225937006376 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225937006377 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 225937006378 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 225937006379 binding surface 225937006380 Tetratricopeptide repeat; Region: TPR_16; pfam13432 225937006381 TPR motif; other site 225937006382 Tetratricopeptide repeat; Region: TPR_16; pfam13432 225937006383 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 225937006384 binding surface 225937006385 TPR motif; other site 225937006386 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 225937006387 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 225937006388 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 225937006389 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 225937006390 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225937006391 catalytic residues [active] 225937006392 Bacterial SH3 domain; Region: SH3_3; cl17532 225937006393 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 225937006394 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 225937006395 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 225937006396 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 225937006397 ApbE family; Region: ApbE; pfam02424 225937006398 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225937006399 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 225937006400 putative ligand binding site [chemical binding]; other site 225937006401 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 225937006402 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 225937006403 tetrameric interface [polypeptide binding]; other site 225937006404 activator binding site; other site 225937006405 NADP binding site [chemical binding]; other site 225937006406 substrate binding site [chemical binding]; other site 225937006407 catalytic residues [active] 225937006408 triosephosphate isomerase; Provisional; Region: PRK14567 225937006409 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 225937006410 substrate binding site [chemical binding]; other site 225937006411 dimer interface [polypeptide binding]; other site 225937006412 catalytic triad [active] 225937006413 enolase; Provisional; Region: eno; PRK00077 225937006414 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 225937006415 dimer interface [polypeptide binding]; other site 225937006416 metal binding site [ion binding]; metal-binding site 225937006417 substrate binding pocket [chemical binding]; other site 225937006418 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 225937006419 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937006420 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937006421 dimer interface [polypeptide binding]; other site 225937006422 putative CheW interface [polypeptide binding]; other site 225937006423 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 225937006424 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 225937006425 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 225937006426 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937006427 dimer interface [polypeptide binding]; other site 225937006428 conserved gate region; other site 225937006429 putative PBP binding loops; other site 225937006430 ABC-ATPase subunit interface; other site 225937006431 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 225937006432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937006433 putative PBP binding loops; other site 225937006434 dimer interface [polypeptide binding]; other site 225937006435 ABC-ATPase subunit interface; other site 225937006436 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 225937006437 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 225937006438 Walker A/P-loop; other site 225937006439 ATP binding site [chemical binding]; other site 225937006440 Q-loop/lid; other site 225937006441 ABC transporter signature motif; other site 225937006442 Walker B; other site 225937006443 D-loop; other site 225937006444 H-loop/switch region; other site 225937006445 TOBE domain; Region: TOBE_2; pfam08402 225937006446 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 225937006447 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 225937006448 Walker A/P-loop; other site 225937006449 ATP binding site [chemical binding]; other site 225937006450 Q-loop/lid; other site 225937006451 ABC transporter signature motif; other site 225937006452 Walker B; other site 225937006453 D-loop; other site 225937006454 H-loop/switch region; other site 225937006455 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 225937006456 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006457 Walker A motif; other site 225937006458 ATP binding site [chemical binding]; other site 225937006459 Walker B motif; other site 225937006460 arginine finger; other site 225937006461 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937006462 glycerol kinase; Provisional; Region: glpK; PRK00047 225937006463 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 225937006464 N- and C-terminal domain interface [polypeptide binding]; other site 225937006465 active site 225937006466 MgATP binding site [chemical binding]; other site 225937006467 catalytic site [active] 225937006468 metal binding site [ion binding]; metal-binding site 225937006469 glycerol binding site [chemical binding]; other site 225937006470 homotetramer interface [polypeptide binding]; other site 225937006471 homodimer interface [polypeptide binding]; other site 225937006472 FBP binding site [chemical binding]; other site 225937006473 protein IIAGlc interface [polypeptide binding]; other site 225937006474 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 225937006475 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 225937006476 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 225937006477 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 225937006478 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 225937006479 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 225937006480 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 225937006481 active site 225937006482 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 225937006483 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 225937006484 dimer interface [polypeptide binding]; other site 225937006485 glucokinase; Provisional; Region: glk; PRK00292 225937006486 glucokinase, proteobacterial type; Region: glk; TIGR00749 225937006487 phosphogluconate dehydratase; Validated; Region: PRK09054 225937006488 6-phosphogluconate dehydratase; Region: edd; TIGR01196 225937006489 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 225937006490 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 225937006491 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 225937006492 pyruvate kinase; Provisional; Region: PRK05826 225937006493 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; cl17342 225937006494 domain interfaces; other site 225937006495 active site 225937006496 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 225937006497 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 225937006498 active site 225937006499 intersubunit interface [polypeptide binding]; other site 225937006500 catalytic residue [active] 225937006501 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 225937006502 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 225937006503 putative active site [active] 225937006504 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 225937006505 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 225937006506 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 225937006507 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 225937006508 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 225937006509 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 225937006510 putative active site [active] 225937006511 SurA N-terminal domain; Region: SurA_N_3; cl07813 225937006512 periplasmic folding chaperone; Provisional; Region: PRK10788 225937006513 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 225937006514 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 225937006515 IHF dimer interface [polypeptide binding]; other site 225937006516 IHF - DNA interface [nucleotide binding]; other site 225937006517 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 225937006518 Found in ATP-dependent protease La (LON); Region: LON; smart00464 225937006519 Nucleolar protein 12 (25kDa); Region: Nop25; pfam09805 225937006520 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006521 Walker A motif; other site 225937006522 ATP binding site [chemical binding]; other site 225937006523 Walker B motif; other site 225937006524 arginine finger; other site 225937006525 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 225937006526 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 225937006527 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 225937006528 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006529 Walker A motif; other site 225937006530 ATP binding site [chemical binding]; other site 225937006531 Walker B motif; other site 225937006532 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 225937006533 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 225937006534 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 225937006535 oligomer interface [polypeptide binding]; other site 225937006536 active site residues [active] 225937006537 trigger factor; Provisional; Region: tig; PRK01490 225937006538 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225937006539 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 225937006540 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 225937006541 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 225937006542 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 225937006543 homodimer interface [polypeptide binding]; other site 225937006544 NADP binding site [chemical binding]; other site 225937006545 substrate binding site [chemical binding]; other site 225937006546 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 225937006547 active site 225937006548 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 225937006549 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 225937006550 active site 225937006551 HIGH motif; other site 225937006552 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 225937006553 KMSKS motif; other site 225937006554 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 225937006555 tRNA binding surface [nucleotide binding]; other site 225937006556 anticodon binding site; other site 225937006557 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 225937006558 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 225937006559 active site 225937006560 HIGH motif; other site 225937006561 nucleotide binding site [chemical binding]; other site 225937006562 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 225937006563 KMSKS motif; other site 225937006564 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 225937006565 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 225937006566 substrate binding site [chemical binding]; other site 225937006567 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 225937006568 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225937006569 putative active site [active] 225937006570 putative metal binding site [ion binding]; other site 225937006571 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 225937006572 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 225937006573 Walker A/P-loop; other site 225937006574 ATP binding site [chemical binding]; other site 225937006575 Q-loop/lid; other site 225937006576 ABC transporter signature motif; other site 225937006577 Walker B; other site 225937006578 D-loop; other site 225937006579 H-loop/switch region; other site 225937006580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937006581 dimer interface [polypeptide binding]; other site 225937006582 conserved gate region; other site 225937006583 putative PBP binding loops; other site 225937006584 ABC-ATPase subunit interface; other site 225937006585 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 225937006586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937006587 conserved gate region; other site 225937006588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937006589 putative PBP binding loops; other site 225937006590 dimer interface [polypeptide binding]; other site 225937006591 ABC-ATPase subunit interface; other site 225937006592 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 225937006593 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937006594 substrate binding pocket [chemical binding]; other site 225937006595 membrane-bound complex binding site; other site 225937006596 hinge residues; other site 225937006597 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 225937006598 active site 225937006599 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 225937006600 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 225937006601 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 225937006602 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 225937006603 FAD binding pocket [chemical binding]; other site 225937006604 FAD binding motif [chemical binding]; other site 225937006605 phosphate binding motif [ion binding]; other site 225937006606 beta-alpha-beta structure motif; other site 225937006607 NAD binding pocket [chemical binding]; other site 225937006608 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 225937006609 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937006610 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 225937006611 putative dimerization interface [polypeptide binding]; other site 225937006612 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 225937006613 active site 225937006614 dinuclear metal binding site [ion binding]; other site 225937006615 dimerization interface [polypeptide binding]; other site 225937006616 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 225937006617 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 225937006618 substrate binding site [chemical binding]; other site 225937006619 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 225937006620 substrate binding site [chemical binding]; other site 225937006621 ligand binding site [chemical binding]; other site 225937006622 hypothetical protein; Provisional; Region: PRK10621 225937006623 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225937006624 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 225937006625 Na binding site [ion binding]; other site 225937006626 Cupin domain; Region: Cupin_2; cl17218 225937006627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937006628 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937006629 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937006630 thymidylate kinase; Validated; Region: tmk; PRK00698 225937006631 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 225937006632 TMP-binding site; other site 225937006633 ATP-binding site [chemical binding]; other site 225937006634 YceG-like family; Region: YceG; pfam02618 225937006635 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 225937006636 dimerization interface [polypeptide binding]; other site 225937006637 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 225937006638 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 225937006639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937006640 catalytic residue [active] 225937006641 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 225937006642 dimer interface [polypeptide binding]; other site 225937006643 active site 225937006644 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 225937006645 acyl carrier protein; Provisional; Region: acpP; PRK00982 225937006646 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 225937006647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937006648 NAD(P) binding site [chemical binding]; other site 225937006649 active site 225937006650 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 225937006651 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 225937006652 putative phosphate acyltransferase; Provisional; Region: PRK05331 225937006653 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 225937006654 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 225937006655 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 225937006656 Maf-like protein; Region: Maf; pfam02545 225937006657 active site 225937006658 dimer interface [polypeptide binding]; other site 225937006659 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 225937006660 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 225937006661 tandem repeat interface [polypeptide binding]; other site 225937006662 oligomer interface [polypeptide binding]; other site 225937006663 active site residues [active] 225937006664 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 225937006665 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 225937006666 active site 225937006667 motif I; other site 225937006668 motif II; other site 225937006669 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 225937006670 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 225937006671 RNA binding surface [nucleotide binding]; other site 225937006672 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225937006673 active site 225937006674 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 225937006675 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 225937006676 homodimer interface [polypeptide binding]; other site 225937006677 oligonucleotide binding site [chemical binding]; other site 225937006678 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 225937006679 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 225937006680 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 225937006681 active site 225937006682 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 225937006683 YciI-like protein; Reviewed; Region: PRK11370 225937006684 Bacterial SH3 domain homologues; Region: SH3b; smart00287 225937006685 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 225937006686 PilZ domain; Region: PilZ; pfam07238 225937006687 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 225937006688 phosphoenolpyruvate synthase; Validated; Region: PRK06464 225937006689 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 225937006690 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 225937006691 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 225937006692 PEP synthetase regulatory protein; Provisional; Region: PRK05339 225937006693 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 225937006694 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 225937006695 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225937006696 Peptidase M16C associated; Region: M16C_assoc; pfam08367 225937006697 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225937006698 PEGA domain; Region: PEGA; pfam08308 225937006699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 225937006700 MORN repeat; Region: MORN; cl14787 225937006701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 225937006702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937006703 Response regulator receiver domain; Region: Response_reg; pfam00072 225937006704 active site 225937006705 phosphorylation site [posttranslational modification] 225937006706 intermolecular recognition site; other site 225937006707 dimerization interface [polypeptide binding]; other site 225937006708 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 225937006709 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 225937006710 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 225937006711 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 225937006712 active site 225937006713 KMSKS motif; other site 225937006714 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 225937006715 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 225937006716 metal binding site [ion binding]; metal-binding site 225937006717 Predicted permeases [General function prediction only]; Region: COG0679 225937006718 Sensors of blue-light using FAD; Region: BLUF; pfam04940 225937006719 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 225937006720 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 225937006721 FMN binding site [chemical binding]; other site 225937006722 active site 225937006723 catalytic residues [active] 225937006724 substrate binding site [chemical binding]; other site 225937006725 transaldolase-like protein; Provisional; Region: PTZ00411 225937006726 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 225937006727 active site 225937006728 dimer interface [polypeptide binding]; other site 225937006729 catalytic residue [active] 225937006730 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 225937006731 putative metal binding site [ion binding]; other site 225937006732 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 225937006733 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 225937006734 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 225937006735 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 225937006736 active site 225937006737 catalytic site [active] 225937006738 metal binding site [ion binding]; metal-binding site 225937006739 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 225937006740 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937006741 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937006742 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225937006743 Protein of unknown function (DUF539); Region: DUF539; cl01129 225937006744 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 225937006745 ApbE family; Region: ApbE; pfam02424 225937006746 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 225937006747 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 225937006748 catalytic loop [active] 225937006749 iron binding site [ion binding]; other site 225937006750 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 225937006751 FAD binding pocket [chemical binding]; other site 225937006752 FAD binding motif [chemical binding]; other site 225937006753 phosphate binding motif [ion binding]; other site 225937006754 beta-alpha-beta structure motif; other site 225937006755 NAD binding pocket [chemical binding]; other site 225937006756 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 225937006757 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 225937006758 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 225937006759 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 225937006760 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 225937006761 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 225937006762 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 225937006763 E3 interaction surface; other site 225937006764 lipoyl attachment site [posttranslational modification]; other site 225937006765 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 225937006766 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 225937006767 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 225937006768 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 225937006769 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 225937006770 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 225937006771 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 225937006772 ATP binding site [chemical binding]; other site 225937006773 putative Mg++ binding site [ion binding]; other site 225937006774 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 225937006775 nucleotide binding region [chemical binding]; other site 225937006776 ATP-binding site [chemical binding]; other site 225937006777 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 225937006778 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 225937006779 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 225937006780 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225937006781 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225937006782 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225937006783 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225937006784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 225937006785 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937006786 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937006787 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 225937006788 Lumazine binding domain; Region: Lum_binding; pfam00677 225937006789 Lumazine binding domain; Region: Lum_binding; pfam00677 225937006790 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 225937006791 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 225937006792 S-adenosylmethionine binding site [chemical binding]; other site 225937006793 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 225937006794 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 225937006795 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 225937006796 S-adenosylmethionine binding site [chemical binding]; other site 225937006797 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 225937006798 active site clefts [active] 225937006799 zinc binding site [ion binding]; other site 225937006800 dimer interface [polypeptide binding]; other site 225937006801 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 225937006802 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 225937006803 MoxR-like ATPases [General function prediction only]; Region: COG0714 225937006804 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006805 Walker A motif; other site 225937006806 ATP binding site [chemical binding]; other site 225937006807 Walker B motif; other site 225937006808 arginine finger; other site 225937006809 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 225937006810 Protein of unknown function DUF58; Region: DUF58; pfam01882 225937006811 von Willebrand factor type A domain; Region: VWA_2; pfam13519 225937006812 metal ion-dependent adhesion site (MIDAS); other site 225937006813 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 225937006814 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...; Region: vWA_BatA_type; cd01467 225937006815 metal ion-dependent adhesion site (MIDAS); other site 225937006816 von Willebrand factor type A domain; Region: VWA_2; pfam13519 225937006817 metal ion-dependent adhesion site (MIDAS); other site 225937006818 Oxygen tolerance; Region: BatD; pfam13584 225937006819 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 225937006820 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 225937006821 binding surface 225937006822 TPR motif; other site 225937006823 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 225937006824 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 225937006825 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 225937006826 catalytic residues [active] 225937006827 central insert; other site 225937006828 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 225937006829 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 225937006830 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 225937006831 heme exporter protein CcmC; Region: ccmC; TIGR01191 225937006832 CcmB protein; Region: CcmB; pfam03379 225937006833 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 225937006834 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937006835 Walker A/P-loop; other site 225937006836 ATP binding site [chemical binding]; other site 225937006837 Q-loop/lid; other site 225937006838 ABC transporter signature motif; other site 225937006839 Walker B; other site 225937006840 D-loop; other site 225937006841 H-loop/switch region; other site 225937006842 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 225937006843 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 225937006844 MoxR-like ATPases [General function prediction only]; Region: COG0714 225937006845 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 225937006846 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 225937006847 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 225937006848 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 225937006849 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 225937006850 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 225937006851 Walker A motif; other site 225937006852 ATP binding site [chemical binding]; other site 225937006853 Walker B motif; other site 225937006854 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 225937006855 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 225937006856 putative CheA interaction surface; other site 225937006857 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 225937006858 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 225937006859 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937006860 P-loop; other site 225937006861 Magnesium ion binding site [ion binding]; other site 225937006862 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937006863 Magnesium ion binding site [ion binding]; other site 225937006864 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 225937006865 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 225937006866 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937006867 ligand binding site [chemical binding]; other site 225937006868 flagellar motor protein; Reviewed; Region: motC; PRK09109 225937006869 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 225937006870 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 225937006871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937006872 active site 225937006873 phosphorylation site [posttranslational modification] 225937006874 intermolecular recognition site; other site 225937006875 dimerization interface [polypeptide binding]; other site 225937006876 CheB methylesterase; Region: CheB_methylest; pfam01339 225937006877 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 225937006878 putative binding surface; other site 225937006879 active site 225937006880 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 225937006881 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 225937006882 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 225937006883 ATP binding site [chemical binding]; other site 225937006884 Mg2+ binding site [ion binding]; other site 225937006885 G-X-G motif; other site 225937006886 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 225937006887 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 225937006888 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 225937006889 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937006890 active site 225937006891 phosphorylation site [posttranslational modification] 225937006892 intermolecular recognition site; other site 225937006893 dimerization interface [polypeptide binding]; other site 225937006894 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 225937006895 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937006896 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 225937006897 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937006898 DNA binding residues [nucleotide binding] 225937006899 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 225937006900 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 225937006901 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 225937006902 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 225937006903 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 225937006904 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 225937006905 FHIPEP family; Region: FHIPEP; pfam00771 225937006906 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225937006907 active site 225937006908 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 225937006909 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 225937006910 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 225937006911 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 225937006912 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 225937006913 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 225937006914 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 225937006915 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 225937006916 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 225937006917 flagellar motor switch protein; Validated; Region: fliN; PRK05698 225937006918 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 225937006919 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 225937006920 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 225937006921 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 225937006922 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 225937006923 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 225937006924 putative binding surface; other site 225937006925 active site 225937006926 Response regulator receiver domain; Region: Response_reg; pfam00072 225937006927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937006928 active site 225937006929 phosphorylation site [posttranslational modification] 225937006930 intermolecular recognition site; other site 225937006931 dimerization interface [polypeptide binding]; other site 225937006932 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 225937006933 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 225937006934 anti sigma factor interaction site; other site 225937006935 regulatory phosphorylation site [posttranslational modification]; other site 225937006936 Flagellar FliJ protein; Region: FliJ; pfam02050 225937006937 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 225937006938 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 225937006939 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 225937006940 Walker A motif/ATP binding site; other site 225937006941 Walker B motif; other site 225937006942 flagellar assembly protein H; Validated; Region: fliH; PRK05687 225937006943 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 225937006944 Flagellar assembly protein FliH; Region: FliH; pfam02108 225937006945 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 225937006946 MgtE intracellular N domain; Region: MgtE_N; smart00924 225937006947 FliG C-terminal domain; Region: FliG_C; pfam01706 225937006948 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 225937006949 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 225937006950 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 225937006951 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 225937006952 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225937006953 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937006954 active site 225937006955 phosphorylation site [posttranslational modification] 225937006956 intermolecular recognition site; other site 225937006957 dimerization interface [polypeptide binding]; other site 225937006958 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006959 Walker A motif; other site 225937006960 ATP binding site [chemical binding]; other site 225937006961 Walker B motif; other site 225937006962 arginine finger; other site 225937006963 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937006964 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937006965 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 225937006966 putative active site [active] 225937006967 heme pocket [chemical binding]; other site 225937006968 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937006969 dimer interface [polypeptide binding]; other site 225937006970 phosphorylation site [posttranslational modification] 225937006971 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 225937006972 ATP binding site [chemical binding]; other site 225937006973 Mg2+ binding site [ion binding]; other site 225937006974 G-X-G motif; other site 225937006975 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 225937006976 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 225937006977 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937006978 Walker A motif; other site 225937006979 ATP binding site [chemical binding]; other site 225937006980 Walker B motif; other site 225937006981 arginine finger; other site 225937006982 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937006983 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 225937006984 Cell division inhibitor SulA; Region: SulA; cl01880 225937006985 LexA repressor; Validated; Region: PRK00215 225937006986 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 225937006987 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 225937006988 Catalytic site [active] 225937006989 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 225937006990 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 225937006991 Glutamine amidotransferase class-I; Region: GATase; pfam00117 225937006992 catalytic triad [active] 225937006993 Uncharacterized conserved protein [Function unknown]; Region: COG2968 225937006994 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 225937006995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 225937006996 Family of unknown function (DUF490); Region: DUF490; pfam04357 225937006997 Family of unknown function (DUF490); Region: DUF490; pfam04357 225937006998 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 225937006999 Surface antigen; Region: Bac_surface_Ag; pfam01103 225937007000 amidase; Provisional; Region: PRK06170 225937007001 Amidase; Region: Amidase; pfam01425 225937007002 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 225937007003 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 225937007004 dimer interface [polypeptide binding]; other site 225937007005 active site 225937007006 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 225937007007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937007008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937007009 NAD(P) binding site [chemical binding]; other site 225937007010 active site 225937007011 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 225937007012 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 225937007013 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 225937007014 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 225937007015 ATP-grasp domain; Region: ATP-grasp; pfam02222 225937007016 superoxide dismutase; Provisional; Region: PRK10543 225937007017 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 225937007018 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 225937007019 biofilm formation regulator HmsP; Provisional; Region: PRK11829 225937007020 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937007021 metal binding site [ion binding]; metal-binding site 225937007022 active site 225937007023 I-site; other site 225937007024 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 225937007025 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 225937007026 Peptidase family M48; Region: Peptidase_M48; cl12018 225937007027 type II secretion system protein D; Region: type_II_gspD; TIGR02517 225937007028 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 225937007029 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 225937007030 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 225937007031 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 225937007032 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 225937007033 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 225937007034 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 225937007035 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 225937007036 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 225937007037 ring oligomerisation interface [polypeptide binding]; other site 225937007038 ATP/Mg binding site [chemical binding]; other site 225937007039 stacking interactions; other site 225937007040 hinge regions; other site 225937007041 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 225937007042 mobile loop; other site 225937007043 oligomerisation interface [polypeptide binding]; other site 225937007044 roof hairpin; other site 225937007045 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 225937007046 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 225937007047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937007048 NAD(P) binding site [chemical binding]; other site 225937007049 active site 225937007050 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 225937007051 active site 225937007052 DNA binding site [nucleotide binding] 225937007053 muropeptide transporter; Reviewed; Region: ampG; PRK11902 225937007054 muropeptide transporter; Validated; Region: ampG; cl17669 225937007055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 225937007056 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 225937007057 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937007058 active site 225937007059 phosphorylation site [posttranslational modification] 225937007060 intermolecular recognition site; other site 225937007061 dimerization interface [polypeptide binding]; other site 225937007062 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 225937007063 metal binding site [ion binding]; metal-binding site 225937007064 nucleotidyl binding site; other site 225937007065 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937007066 SurA N-terminal domain; Region: SurA_N; pfam09312 225937007067 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 225937007068 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937007069 argininosuccinate synthase; Provisional; Region: PRK13820 225937007070 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 225937007071 ANP binding site [chemical binding]; other site 225937007072 Substrate Binding Site II [chemical binding]; other site 225937007073 Substrate Binding Site I [chemical binding]; other site 225937007074 flagellar protein FliS; Validated; Region: fliS; PRK05685 225937007075 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 225937007076 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 225937007077 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 225937007078 FlaG protein; Region: FlaG; pfam03646 225937007079 flagellin; Reviewed; Region: PRK08869 225937007080 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 225937007081 flagellin; Reviewed; Region: PRK08869 225937007082 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 225937007083 flagellin; Reviewed; Region: PRK08869 225937007084 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 225937007085 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 225937007086 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 225937007087 TPR motif; other site 225937007088 binding surface 225937007089 exonuclease I; Provisional; Region: sbcB; PRK11779 225937007090 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 225937007091 active site 225937007092 catalytic site [active] 225937007093 substrate binding site [chemical binding]; other site 225937007094 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 225937007095 Response regulator receiver domain; Region: Response_reg; pfam00072 225937007096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937007097 active site 225937007098 phosphorylation site [posttranslational modification] 225937007099 intermolecular recognition site; other site 225937007100 dimerization interface [polypeptide binding]; other site 225937007101 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 225937007102 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 225937007103 PAS fold; Region: PAS_4; pfam08448 225937007104 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937007105 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937007106 metal binding site [ion binding]; metal-binding site 225937007107 active site 225937007108 I-site; other site 225937007109 H-NS histone family; Region: Histone_HNS; pfam00816 225937007110 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 225937007111 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225937007112 Beta-Casp domain; Region: Beta-Casp; smart01027 225937007113 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 225937007114 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 225937007115 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 225937007116 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 225937007117 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 225937007118 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 225937007119 active site 225937007120 homodimer interface [polypeptide binding]; other site 225937007121 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 225937007122 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 225937007123 NAD(P) binding site [chemical binding]; other site 225937007124 homodimer interface [polypeptide binding]; other site 225937007125 substrate binding site [chemical binding]; other site 225937007126 active site 225937007127 Bacterial sugar transferase; Region: Bac_transf; pfam02397 225937007128 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 225937007129 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 225937007130 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 225937007131 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 225937007132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937007133 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 225937007134 NAD(P) binding site [chemical binding]; other site 225937007135 active site 225937007136 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 225937007137 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 225937007138 NAD binding site [chemical binding]; other site 225937007139 putative substrate binding site 2 [chemical binding]; other site 225937007140 putative substrate binding site 1 [chemical binding]; other site 225937007141 active site 225937007142 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 225937007143 pseudaminic acid synthase; Region: PseI; TIGR03586 225937007144 NeuB family; Region: NeuB; pfam03102 225937007145 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 225937007146 NeuB binding interface [polypeptide binding]; other site 225937007147 putative substrate binding site [chemical binding]; other site 225937007148 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 225937007149 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 225937007150 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 225937007151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937007152 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 225937007153 active site 225937007154 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 225937007155 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 225937007156 active site 225937007157 catalytic tetrad [active] 225937007158 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 225937007159 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 225937007160 inhibitor-cofactor binding pocket; inhibition site 225937007161 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937007162 catalytic residue [active] 225937007163 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 225937007164 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 225937007165 NAD(P) binding site [chemical binding]; other site 225937007166 homodimer interface [polypeptide binding]; other site 225937007167 substrate binding site [chemical binding]; other site 225937007168 active site 225937007169 Chain length determinant protein; Region: Wzz; pfam02706 225937007170 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 225937007171 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 225937007172 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 225937007173 SLBB domain; Region: SLBB; pfam10531 225937007174 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 225937007175 SLBB domain; Region: SLBB; pfam10531 225937007176 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 225937007177 SLBB domain; Region: SLBB; pfam10531 225937007178 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 225937007179 Chain length determinant protein; Region: Wzz; cl15801 225937007180 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 225937007181 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 225937007182 heterodimer interface [polypeptide binding]; other site 225937007183 homodimer interface [polypeptide binding]; other site 225937007184 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 225937007185 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 225937007186 active site 225937007187 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 225937007188 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225937007189 Beta-Casp domain; Region: Beta-Casp; smart01027 225937007190 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 225937007191 O-Antigen ligase; Region: Wzy_C; pfam04932 225937007192 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 225937007193 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 225937007194 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 225937007195 Walker A motif; other site 225937007196 ATP binding site [chemical binding]; other site 225937007197 Walker B motif; other site 225937007198 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 225937007199 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225937007200 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225937007201 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 225937007202 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 225937007203 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 225937007204 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 225937007205 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 225937007206 CoA-binding site [chemical binding]; other site 225937007207 ATP-binding [chemical binding]; other site 225937007208 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 225937007209 homodimer interaction site [polypeptide binding]; other site 225937007210 cofactor binding site; other site 225937007211 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937007212 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937007213 dimer interface [polypeptide binding]; other site 225937007214 phosphorylation site [posttranslational modification] 225937007215 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 225937007216 ATP binding site [chemical binding]; other site 225937007217 Mg2+ binding site [ion binding]; other site 225937007218 G-X-G motif; other site 225937007219 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 225937007220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937007221 active site 225937007222 phosphorylation site [posttranslational modification] 225937007223 intermolecular recognition site; other site 225937007224 Response regulator receiver domain; Region: Response_reg; pfam00072 225937007225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937007226 active site 225937007227 phosphorylation site [posttranslational modification] 225937007228 intermolecular recognition site; other site 225937007229 dimerization interface [polypeptide binding]; other site 225937007230 Domain of unknown function (DUF329); Region: DUF329; pfam03884 225937007231 YfaZ precursor; Region: YfaZ; pfam07437 225937007232 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 225937007233 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 225937007234 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 225937007235 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937007236 DNA binding residues [nucleotide binding] 225937007237 dimerization interface [polypeptide binding]; other site 225937007238 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 225937007239 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 225937007240 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 225937007241 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 225937007242 dimer interface [polypeptide binding]; other site 225937007243 active site 225937007244 Predicted ATPase [General function prediction only]; Region: COG1485 225937007245 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 225937007246 Uncharacterized conserved protein [Function unknown]; Region: COG0327 225937007247 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 225937007248 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 225937007249 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 225937007250 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937007251 homodimer interface [polypeptide binding]; other site 225937007252 catalytic residue [active] 225937007253 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 225937007254 histidinol dehydrogenase; Region: hisD; TIGR00069 225937007255 NAD binding site [chemical binding]; other site 225937007256 dimerization interface [polypeptide binding]; other site 225937007257 product binding site; other site 225937007258 substrate binding site [chemical binding]; other site 225937007259 zinc binding site [ion binding]; other site 225937007260 catalytic residues [active] 225937007261 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 225937007262 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 225937007263 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 225937007264 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 225937007265 hinge; other site 225937007266 active site 225937007267 BolA-like protein; Region: BolA; cl00386 225937007268 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 225937007269 anti sigma factor interaction site; other site 225937007270 regulatory phosphorylation site [posttranslational modification]; other site 225937007271 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 225937007272 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 225937007273 mce related protein; Region: MCE; pfam02470 225937007274 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 225937007275 Permease; Region: Permease; cl00510 225937007276 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 225937007277 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 225937007278 Walker A/P-loop; other site 225937007279 ATP binding site [chemical binding]; other site 225937007280 Q-loop/lid; other site 225937007281 ABC transporter signature motif; other site 225937007282 Walker B; other site 225937007283 D-loop; other site 225937007284 H-loop/switch region; other site 225937007285 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 225937007286 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 225937007287 putative active site [active] 225937007288 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 225937007289 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 225937007290 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 225937007291 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 225937007292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 225937007293 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 225937007294 OstA-like protein; Region: OstA; pfam03968 225937007295 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 225937007296 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 225937007297 Walker A/P-loop; other site 225937007298 ATP binding site [chemical binding]; other site 225937007299 Q-loop/lid; other site 225937007300 ABC transporter signature motif; other site 225937007301 Walker B; other site 225937007302 D-loop; other site 225937007303 H-loop/switch region; other site 225937007304 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 225937007305 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 225937007306 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 225937007307 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 225937007308 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...; Region: RaiA; cd00552 225937007309 30S subunit binding site; other site 225937007310 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 225937007311 active site 225937007312 phosphorylation site [posttranslational modification] 225937007313 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 225937007314 AAA domain; Region: AAA_18; pfam13238 225937007315 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 225937007316 dimerization domain swap beta strand [polypeptide binding]; other site 225937007317 regulatory protein interface [polypeptide binding]; other site 225937007318 active site 225937007319 regulatory phosphorylation site [posttranslational modification]; other site 225937007320 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 225937007321 MgtE intracellular N domain; Region: MgtE_N; smart00924 225937007322 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 225937007323 Divalent cation transporter; Region: MgtE; cl00786 225937007324 Protein of unknown function (DUF615); Region: DUF615; pfam04751 225937007325 nitrilase; Region: PLN02798 225937007326 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 225937007327 putative active site [active] 225937007328 catalytic triad [active] 225937007329 dimer interface [polypeptide binding]; other site 225937007330 TIGR02099 family protein; Region: TIGR02099 225937007331 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 225937007332 ribonuclease G; Provisional; Region: PRK11712 225937007333 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 225937007334 homodimer interface [polypeptide binding]; other site 225937007335 oligonucleotide binding site [chemical binding]; other site 225937007336 Maf-like protein; Region: Maf; pfam02545 225937007337 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 225937007338 active site 225937007339 dimer interface [polypeptide binding]; other site 225937007340 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 225937007341 rod shape-determining protein MreC; Provisional; Region: PRK13922 225937007342 rod shape-determining protein MreC; Region: MreC; pfam04085 225937007343 rod shape-determining protein MreB; Provisional; Region: PRK13927 225937007344 MreB and similar proteins; Region: MreB_like; cd10225 225937007345 nucleotide binding site [chemical binding]; other site 225937007346 Mg binding site [ion binding]; other site 225937007347 putative protofilament interaction site [polypeptide binding]; other site 225937007348 RodZ interaction site [polypeptide binding]; other site 225937007349 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 225937007350 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 225937007351 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 225937007352 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 225937007353 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 225937007354 GatB domain; Region: GatB_Yqey; smart00845 225937007355 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 225937007356 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 225937007357 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 225937007358 FeS/SAM binding site; other site 225937007359 PilZ domain; Region: PilZ; pfam07238 225937007360 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 225937007361 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 225937007362 Active Sites [active] 225937007363 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 225937007364 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 225937007365 CysD dimerization site [polypeptide binding]; other site 225937007366 G1 box; other site 225937007367 putative GEF interaction site [polypeptide binding]; other site 225937007368 GTP/Mg2+ binding site [chemical binding]; other site 225937007369 Switch I region; other site 225937007370 G2 box; other site 225937007371 G3 box; other site 225937007372 Switch II region; other site 225937007373 G4 box; other site 225937007374 G5 box; other site 225937007375 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 225937007376 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 225937007377 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 225937007378 Nucleoid-associated protein [General function prediction only]; Region: COG3081 225937007379 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 225937007380 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 225937007381 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 225937007382 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 225937007383 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 225937007384 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 225937007385 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 225937007386 FeS/SAM binding site; other site 225937007387 TRAM domain; Region: TRAM; pfam01938 225937007388 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 225937007389 PhoH-like protein; Region: PhoH; pfam02562 225937007390 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 225937007391 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 225937007392 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 225937007393 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 225937007394 Transporter associated domain; Region: CorC_HlyC; smart01091 225937007395 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 225937007396 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 225937007397 putative active site [active] 225937007398 catalytic triad [active] 225937007399 putative dimer interface [polypeptide binding]; other site 225937007400 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 225937007401 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 225937007402 HIGH motif; other site 225937007403 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 225937007404 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 225937007405 active site 225937007406 KMSKS motif; other site 225937007407 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 225937007408 tRNA binding surface [nucleotide binding]; other site 225937007409 Lipopolysaccharide-assembly; Region: LptE; cl01125 225937007410 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 225937007411 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 225937007412 Endonuclease I; Region: Endonuclease_1; cl01003 225937007413 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 225937007414 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 225937007415 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937007416 active site 225937007417 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 225937007418 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 225937007419 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 225937007420 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937007421 active site 225937007422 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 225937007423 SprA-related family; Region: SprA-related; pfam12118 225937007424 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 225937007425 AAA domain; Region: AAA_26; pfam13500 225937007426 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 225937007427 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 225937007428 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 225937007429 S-adenosylmethionine binding site [chemical binding]; other site 225937007430 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 225937007431 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 225937007432 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 225937007433 substrate-cofactor binding pocket; other site 225937007434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937007435 catalytic residue [active] 225937007436 biotin synthase; Region: bioB; TIGR00433 225937007437 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 225937007438 FeS/SAM binding site; other site 225937007439 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 225937007440 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 225937007441 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225937007442 active site 225937007443 Predicted dehydrogenase [General function prediction only]; Region: COG0579 225937007444 hydroxyglutarate oxidase; Provisional; Region: PRK11728 225937007445 serine/threonine protein kinase; Provisional; Region: PRK11768 225937007446 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 225937007447 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 225937007448 S-adenosylmethionine binding site [chemical binding]; other site 225937007449 Methyltransferase domain; Region: Methyltransf_31; pfam13847 225937007450 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 225937007451 S-adenosylmethionine binding site [chemical binding]; other site 225937007452 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 225937007453 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 225937007454 GDP-binding site [chemical binding]; other site 225937007455 ACT binding site; other site 225937007456 IMP binding site; other site 225937007457 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 225937007458 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...; Region: HisRS-like_core; cd00773 225937007459 dimer interface [polypeptide binding]; other site 225937007460 motif 1; other site 225937007461 active site 225937007462 motif 2; other site 225937007463 motif 3; other site 225937007464 HflC protein; Region: hflC; TIGR01932 225937007465 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 225937007466 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 225937007467 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 225937007468 HflK protein; Region: hflK; TIGR01933 225937007469 GTPase HflX; Provisional; Region: PRK11058 225937007470 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 225937007471 HflX GTPase family; Region: HflX; cd01878 225937007472 G1 box; other site 225937007473 GTP/Mg2+ binding site [chemical binding]; other site 225937007474 Switch I region; other site 225937007475 G2 box; other site 225937007476 G3 box; other site 225937007477 Switch II region; other site 225937007478 G4 box; other site 225937007479 G5 box; other site 225937007480 hexamer interface [polypeptide binding]; other site 225937007481 RNA binding site [nucleotide binding]; other site 225937007482 Sm and related proteins; Region: Sm_like; cl00259 225937007483 heptamer interface [polypeptide binding]; other site 225937007484 Sm2 motif; other site 225937007485 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 225937007486 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 225937007487 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 225937007488 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 225937007489 ATP binding site [chemical binding]; other site 225937007490 Mg2+ binding site [ion binding]; other site 225937007491 G-X-G motif; other site 225937007492 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 225937007493 ATP binding site [chemical binding]; other site 225937007494 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 225937007495 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 225937007496 AMIN domain; Region: AMIN; pfam11741 225937007497 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 225937007498 active site 225937007499 metal binding site [ion binding]; metal-binding site 225937007500 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225937007501 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 225937007502 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 225937007503 putative carbohydrate kinase; Provisional; Region: PRK10565 225937007504 Uncharacterized conserved protein [Function unknown]; Region: COG0062 225937007505 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 225937007506 putative substrate binding site [chemical binding]; other site 225937007507 putative ATP binding site [chemical binding]; other site 225937007508 epoxyqueuosine reductase; Region: TIGR00276 225937007509 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 225937007510 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 225937007511 catalytic site [active] 225937007512 putative active site [active] 225937007513 putative substrate binding site [chemical binding]; other site 225937007514 dimer interface [polypeptide binding]; other site 225937007515 GTPase RsgA; Reviewed; Region: PRK12288 225937007516 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 225937007517 RNA binding site [nucleotide binding]; other site 225937007518 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 225937007519 GTPase/Zn-binding domain interface [polypeptide binding]; other site 225937007520 GTP/Mg2+ binding site [chemical binding]; other site 225937007521 G4 box; other site 225937007522 G5 box; other site 225937007523 G1 box; other site 225937007524 Switch I region; other site 225937007525 G2 box; other site 225937007526 G3 box; other site 225937007527 Switch II region; other site 225937007528 flagellar motor protein MotB; Validated; Region: motB; PRK09041 225937007529 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937007530 ligand binding site [chemical binding]; other site 225937007531 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 225937007532 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 225937007533 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 225937007534 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 225937007535 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 225937007536 motif 1; other site 225937007537 dimer interface [polypeptide binding]; other site 225937007538 active site 225937007539 motif 2; other site 225937007540 motif 3; other site 225937007541 elongation factor P; Validated; Region: PRK00529 225937007542 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 225937007543 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 225937007544 RNA binding site [nucleotide binding]; other site 225937007545 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 225937007546 RNA binding site [nucleotide binding]; other site 225937007547 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 225937007548 FeS/SAM binding site; other site 225937007549 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225937007550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937007551 active site 225937007552 phosphorylation site [posttranslational modification] 225937007553 intermolecular recognition site; other site 225937007554 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 225937007555 putative active site [active] 225937007556 heme pocket [chemical binding]; other site 225937007557 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937007558 metal binding site [ion binding]; metal-binding site 225937007559 active site 225937007560 I-site; other site 225937007561 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 225937007562 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 225937007563 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 225937007564 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 225937007565 phosphoserine phosphatase SerB; Region: serB; TIGR00338 225937007566 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 225937007567 motif II; other site 225937007568 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 225937007569 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...; Region: TOP4c; cd00187 225937007570 CAP-like domain; other site 225937007571 active site 225937007572 primary dimer interface [polypeptide binding]; other site 225937007573 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 225937007574 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937007575 dimerization interface [polypeptide binding]; other site 225937007576 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937007577 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937007578 dimer interface [polypeptide binding]; other site 225937007579 putative CheW interface [polypeptide binding]; other site 225937007580 hypothetical protein; Provisional; Region: PRK03757 225937007581 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 225937007582 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 225937007583 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; cl17221 225937007584 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 225937007585 TrkA-C domain; Region: TrkA_C; pfam02080 225937007586 TrkA-C domain; Region: TrkA_C; pfam02080 225937007587 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 225937007588 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; cl17221 225937007589 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 225937007590 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 225937007591 Mg2+ binding site [ion binding]; other site 225937007592 G-X-G motif; other site 225937007593 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 225937007594 anchoring element; other site 225937007595 dimer interface [polypeptide binding]; other site 225937007596 ATP binding site [chemical binding]; other site 225937007597 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 225937007598 active site 225937007599 metal binding site [ion binding]; metal-binding site 225937007600 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 225937007601 PrcB C-terminal; Region: PrcB_C; pfam14343 225937007602 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 225937007603 active site 225937007604 catalytic residues [active] 225937007605 DctM-like transporters; Region: DctM; pfam06808 225937007606 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 225937007607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937007608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937007609 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 225937007610 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 225937007611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937007612 NAD(P) binding site [chemical binding]; other site 225937007613 active site 225937007614 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 225937007615 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 225937007616 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 225937007617 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937007618 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937007619 active site 225937007620 enoyl-CoA hydratase; Provisional; Region: PRK05995 225937007621 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 225937007622 substrate binding site [chemical binding]; other site 225937007623 oxyanion hole (OAH) forming residues; other site 225937007624 trimer interface [polypeptide binding]; other site 225937007625 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 225937007626 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225937007627 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 225937007628 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 225937007629 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 225937007630 carboxyltransferase (CT) interaction site; other site 225937007631 biotinylation site [posttranslational modification]; other site 225937007632 short chain dehydrogenase; Provisional; Region: PRK08278 225937007633 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937007634 NAD(P) binding site [chemical binding]; other site 225937007635 active site 225937007636 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 225937007637 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225937007638 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 225937007639 acyl-activating enzyme (AAE) consensus motif; other site 225937007640 acyl-activating enzyme (AAE) consensus motif; other site 225937007641 putative AMP binding site [chemical binding]; other site 225937007642 putative active site [active] 225937007643 active site 225937007644 AMP binding site [chemical binding]; other site 225937007645 putative CoA binding site [chemical binding]; other site 225937007646 CoA binding site [chemical binding]; other site 225937007647 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 225937007648 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 225937007649 NAD(P) binding site [chemical binding]; other site 225937007650 Sensors of blue-light using FAD; Region: BLUF; pfam04940 225937007651 Predicted membrane protein [Function unknown]; Region: COG2860 225937007652 UPF0126 domain; Region: UPF0126; pfam03458 225937007653 UPF0126 domain; Region: UPF0126; pfam03458 225937007654 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 225937007655 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 225937007656 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225937007657 active site 225937007658 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 225937007659 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 225937007660 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 225937007661 ABC1 family; Region: ABC1; pfam03109 225937007662 NAD-dependent deacetylase; Provisional; Region: PRK00481 225937007663 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 which...; Region: SIRT5_Af1_CobB; cd01412 225937007664 NAD+ binding site [chemical binding]; other site 225937007665 substrate binding site [chemical binding]; other site 225937007666 Zn binding site [ion binding]; other site 225937007667 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 225937007668 FAD binding domain; Region: FAD_binding_4; pfam01565 225937007669 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 225937007670 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 225937007671 ligand binding site [chemical binding]; other site 225937007672 NAD binding site [chemical binding]; other site 225937007673 tetramer interface [polypeptide binding]; other site 225937007674 catalytic site [active] 225937007675 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 225937007676 L-serine binding site [chemical binding]; other site 225937007677 ACT domain interface; other site 225937007678 putative outer membrane lipoprotein; Provisional; Region: PRK10510 225937007679 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937007680 ligand binding site [chemical binding]; other site 225937007681 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225937007682 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 225937007683 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; cd00312 225937007684 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 225937007685 substrate binding pocket [chemical binding]; other site 225937007686 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 225937007687 putative active site [active] 225937007688 GIY-YIG motif/motif A; other site 225937007689 putative metal binding site [ion binding]; other site 225937007690 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 225937007691 EamA-like transporter family; Region: EamA; pfam00892 225937007692 EamA-like transporter family; Region: EamA; pfam00892 225937007693 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 225937007694 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 225937007695 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225937007696 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225937007697 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 225937007698 Imelysin; Region: Peptidase_M75; cl09159 225937007699 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 225937007700 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 225937007701 Imelysin; Region: Peptidase_M75; pfam09375 225937007702 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 225937007703 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 225937007704 Predicted membrane protein [Function unknown]; Region: COG3671 225937007705 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937007706 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937007707 dimer interface [polypeptide binding]; other site 225937007708 putative CheW interface [polypeptide binding]; other site 225937007709 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 225937007710 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 225937007711 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 225937007712 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 225937007713 Fatty acid desaturase; Region: FA_desaturase; pfam00487 225937007714 Di-iron ligands [ion binding]; other site 225937007715 enoyl-CoA hydratase; Provisional; Region: PRK06563 225937007716 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 225937007717 substrate binding site [chemical binding]; other site 225937007718 oxyanion hole (OAH) forming residues; other site 225937007719 trimer interface [polypeptide binding]; other site 225937007720 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 225937007721 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 225937007722 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937007723 active site 225937007724 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 225937007725 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 225937007726 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 225937007727 conserved cys residue [active] 225937007728 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937007729 Domain of unknown function DUF21; Region: DUF21; pfam01595 225937007730 FOG: CBS domain [General function prediction only]; Region: COG0517 225937007731 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 225937007732 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225937007733 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 225937007734 active site 225937007735 FMN binding site [chemical binding]; other site 225937007736 2,4-decadienoyl-CoA binding site; other site 225937007737 catalytic residue [active] 225937007738 4Fe-4S cluster binding site [ion binding]; other site 225937007739 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 225937007740 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937007741 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 225937007742 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 225937007743 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 225937007744 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 225937007745 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 225937007746 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 225937007747 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 225937007748 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 225937007749 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 225937007750 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 225937007751 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 225937007752 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 225937007753 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 225937007754 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 225937007755 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 225937007756 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 225937007757 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 225937007758 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 225937007759 Multisubunit Na+/H+ antiporter, MnhF subunit [Inorganic ion transport and metabolism]; Region: MnhF; COG2212 225937007760 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 225937007761 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 225937007762 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 225937007763 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 225937007764 dimer interface [polypeptide binding]; other site 225937007765 acyl-activating enzyme (AAE) consensus motif; other site 225937007766 putative active site [active] 225937007767 AMP binding site [chemical binding]; other site 225937007768 putative CoA binding site [chemical binding]; other site 225937007769 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 225937007770 homotrimer interaction site [polypeptide binding]; other site 225937007771 putative active site [active] 225937007772 Propionate catabolism activator; Region: PrpR_N; pfam06506 225937007773 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937007774 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 225937007775 Walker A motif; other site 225937007776 ATP binding site [chemical binding]; other site 225937007777 Walker B motif; other site 225937007778 arginine finger; other site 225937007779 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937007780 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 225937007781 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 225937007782 substrate binding site [chemical binding]; other site 225937007783 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 225937007784 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 225937007785 substrate binding site [chemical binding]; other site 225937007786 ligand binding site [chemical binding]; other site 225937007787 Isochorismatase family; Region: Isochorismatase; pfam00857 225937007788 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 225937007789 catalytic triad [active] 225937007790 conserved cis-peptide bond; other site 225937007791 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 225937007792 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 225937007793 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 225937007794 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 225937007795 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 225937007796 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 225937007797 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 225937007798 Protein export membrane protein; Region: SecD_SecF; cl14618 225937007799 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 225937007800 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 225937007801 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 225937007802 active site 225937007803 catalytic residues [active] 225937007804 metal binding site [ion binding]; metal-binding site 225937007805 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 225937007806 CoA-transferase family III; Region: CoA_transf_3; pfam02515 225937007807 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 225937007808 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 225937007809 translation initiation factor Sui1; Validated; Region: PRK06824 225937007810 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 225937007811 putative rRNA binding site [nucleotide binding]; other site 225937007812 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 225937007813 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 225937007814 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 225937007815 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 225937007816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937007817 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937007818 dimerization interface [polypeptide binding]; other site 225937007819 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937007820 dimer interface [polypeptide binding]; other site 225937007821 phosphorylation site [posttranslational modification] 225937007822 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 225937007823 ATP binding site [chemical binding]; other site 225937007824 Mg2+ binding site [ion binding]; other site 225937007825 G-X-G motif; other site 225937007826 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225937007827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937007828 active site 225937007829 phosphorylation site [posttranslational modification] 225937007830 intermolecular recognition site; other site 225937007831 dimerization interface [polypeptide binding]; other site 225937007832 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937007833 DNA binding site [nucleotide binding] 225937007834 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 225937007835 Protein of unknown function, DUF482; Region: DUF482; pfam04339 225937007836 Dodecin; Region: Dodecin; pfam07311 225937007837 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 225937007838 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 225937007839 AzlC protein; Region: AzlC; cl00570 225937007840 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 225937007841 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 225937007842 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 225937007843 NAD binding site [chemical binding]; other site 225937007844 Phe binding site; other site 225937007845 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 225937007846 Na2 binding site [ion binding]; other site 225937007847 putative substrate binding site 1 [chemical binding]; other site 225937007848 Na binding site 1 [ion binding]; other site 225937007849 putative substrate binding site 2 [chemical binding]; other site 225937007850 NAD-dependent deacetylase; Provisional; Region: PRK05333 225937007851 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 225937007852 NAD+ binding site [chemical binding]; other site 225937007853 substrate binding site [chemical binding]; other site 225937007854 Zn binding site [ion binding]; other site 225937007855 Methyltransferase domain; Region: Methyltransf_26; pfam13659 225937007856 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 225937007857 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 225937007858 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937007859 Walker A/P-loop; other site 225937007860 ATP binding site [chemical binding]; other site 225937007861 Q-loop/lid; other site 225937007862 ABC transporter signature motif; other site 225937007863 Walker B; other site 225937007864 D-loop; other site 225937007865 H-loop/switch region; other site 225937007866 ABC transporter; Region: ABC_tran_2; pfam12848 225937007867 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225937007868 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 225937007869 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 225937007870 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 225937007871 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 225937007872 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 225937007873 active site 225937007874 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 225937007875 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...; Region: LT_GEWL; cd00254 225937007876 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225937007877 catalytic residue [active] 225937007878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937007879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937007880 LysR substrate binding domain; Region: LysR_substrate; pfam03466 225937007881 dimerization interface [polypeptide binding]; other site 225937007882 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 225937007883 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 225937007884 acyl-activating enzyme (AAE) consensus motif; other site 225937007885 putative AMP binding site [chemical binding]; other site 225937007886 putative active site [active] 225937007887 putative CoA binding site [chemical binding]; other site 225937007888 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 225937007889 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 225937007890 putative DNA binding site [nucleotide binding]; other site 225937007891 putative Zn2+ binding site [ion binding]; other site 225937007892 AsnC family; Region: AsnC_trans_reg; pfam01037 225937007893 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 225937007894 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 225937007895 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 225937007896 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 225937007897 S-adenosylmethionine binding site [chemical binding]; other site 225937007898 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225937007899 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 225937007900 dimerization interface [polypeptide binding]; other site 225937007901 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937007902 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937007903 dimer interface [polypeptide binding]; other site 225937007904 putative CheW interface [polypeptide binding]; other site 225937007905 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 225937007906 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 225937007907 FeS/SAM binding site; other site 225937007908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 225937007909 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 225937007910 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225937007911 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225937007912 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225937007913 Rdx family; Region: Rdx; cl01407 225937007914 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225937007915 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_family; cd02803 225937007916 active site 225937007917 FMN binding site [chemical binding]; other site 225937007918 substrate binding site [chemical binding]; other site 225937007919 putative catalytic residue [active] 225937007920 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 225937007921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937007922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937007923 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 225937007924 dimerization interface [polypeptide binding]; other site 225937007925 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 225937007926 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 225937007927 tetrameric interface [polypeptide binding]; other site 225937007928 NAD binding site [chemical binding]; other site 225937007929 catalytic residues [active] 225937007930 choline dehydrogenase; Validated; Region: PRK02106 225937007931 lycopene cyclase; Region: lycopene_cycl; TIGR01789 225937007932 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 225937007933 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 225937007934 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 225937007935 NADH(P)-binding; Region: NAD_binding_10; pfam13460 225937007936 NAD binding site [chemical binding]; other site 225937007937 active site 225937007938 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 225937007939 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 225937007940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 225937007941 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 225937007942 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 225937007943 putative active site [active] 225937007944 heme pocket [chemical binding]; other site 225937007945 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 225937007946 ATP binding site [chemical binding]; other site 225937007947 Mg2+ binding site [ion binding]; other site 225937007948 G-X-G motif; other site 225937007949 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 225937007950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937007951 active site 225937007952 phosphorylation site [posttranslational modification] 225937007953 intermolecular recognition site; other site 225937007954 dimerization interface [polypeptide binding]; other site 225937007955 Transcriptional regulator; Region: CitT; pfam12431 225937007956 Peptidase family M48; Region: Peptidase_M48; pfam01435 225937007957 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 225937007958 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 225937007959 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 225937007960 substrate binding pocket [chemical binding]; other site 225937007961 membrane-bound complex binding site; other site 225937007962 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 225937007963 putative lipid kinase; Reviewed; Region: PRK13057 225937007964 haloalkane dehalogenase; Provisional; Region: PRK00870 225937007965 Epoxide hydrolase N terminus; Region: EHN; pfam06441 225937007966 Predicted permeases [General function prediction only]; Region: RarD; COG2962 225937007967 EamA-like transporter family; Region: EamA; cl17759 225937007968 EamA-like transporter family; Region: EamA; pfam00892 225937007969 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 225937007970 Uncharacterized conserved protein [Function unknown]; Region: COG0398 225937007971 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 225937007972 Phosphate-starvation-inducible E; Region: PsiE; cl01264 225937007973 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 225937007974 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 225937007975 RNA binding surface [nucleotide binding]; other site 225937007976 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 225937007977 active site 225937007978 uracil binding [chemical binding]; other site 225937007979 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 225937007980 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 225937007981 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 225937007982 shikimate kinase; Reviewed; Region: aroK; PRK00131 225937007983 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 225937007984 ADP binding site [chemical binding]; other site 225937007985 magnesium binding site [ion binding]; other site 225937007986 putative shikimate binding site; other site 225937007987 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225937007988 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 225937007989 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...; Region: LT_GEWL; cd00254 225937007990 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225937007991 catalytic residue [active] 225937007992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937007993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937007994 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 225937007995 dimerization interface [polypeptide binding]; other site 225937007996 hypothetical protein; Provisional; Region: PRK05463 225937007997 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 225937007998 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 225937007999 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 225937008000 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 225937008001 putative active site [active] 225937008002 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 225937008003 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 225937008004 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 225937008005 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 225937008006 Proline dehydrogenase; Region: Pro_dh; pfam01619 225937008007 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 225937008008 Glutamate binding site [chemical binding]; other site 225937008009 NAD binding site [chemical binding]; other site 225937008010 catalytic residues [active] 225937008011 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 225937008012 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 225937008013 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 225937008014 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 225937008015 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 225937008016 putative DNA binding site [nucleotide binding]; other site 225937008017 putative Zn2+ binding site [ion binding]; other site 225937008018 AsnC family; Region: AsnC_trans_reg; pfam01037 225937008019 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 225937008020 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 225937008021 putative trimer interface [polypeptide binding]; other site 225937008022 putative metal binding site [ion binding]; other site 225937008023 enoyl-CoA hydratase; Provisional; Region: PRK08140 225937008024 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 225937008025 substrate binding site [chemical binding]; other site 225937008026 oxyanion hole (OAH) forming residues; other site 225937008027 trimer interface [polypeptide binding]; other site 225937008028 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 225937008029 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 225937008030 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225937008031 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225937008032 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 225937008033 CoenzymeA binding site [chemical binding]; other site 225937008034 subunit interaction site [polypeptide binding]; other site 225937008035 PHB binding site; other site 225937008036 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 225937008037 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 225937008038 dimer interface [polypeptide binding]; other site 225937008039 active site 225937008040 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225937008041 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 225937008042 acyl-activating enzyme (AAE) consensus motif; other site 225937008043 AMP binding site [chemical binding]; other site 225937008044 active site 225937008045 CoA binding site [chemical binding]; other site 225937008046 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 225937008047 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 225937008048 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 225937008049 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 225937008050 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 225937008051 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 225937008052 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 225937008053 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 225937008054 FAD binding pocket [chemical binding]; other site 225937008055 FAD binding motif [chemical binding]; other site 225937008056 phosphate binding motif [ion binding]; other site 225937008057 beta-alpha-beta structure motif; other site 225937008058 NAD(p) ribose binding residues [chemical binding]; other site 225937008059 NAD binding pocket [chemical binding]; other site 225937008060 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 225937008061 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 225937008062 catalytic loop [active] 225937008063 iron binding site [ion binding]; other site 225937008064 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 225937008065 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 225937008066 substrate binding site [chemical binding]; other site 225937008067 dimer interface [polypeptide binding]; other site 225937008068 NADP binding site [chemical binding]; other site 225937008069 catalytic residues [active] 225937008070 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 225937008071 substrate binding site [chemical binding]; other site 225937008072 Hemerythrin-like domain; Region: Hr-like; cd12108 225937008073 Fe binding site [ion binding]; other site 225937008074 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 225937008075 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 225937008076 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 225937008077 Walker A/P-loop; other site 225937008078 ATP binding site [chemical binding]; other site 225937008079 Q-loop/lid; other site 225937008080 ABC transporter signature motif; other site 225937008081 Walker B; other site 225937008082 D-loop; other site 225937008083 H-loop/switch region; other site 225937008084 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 225937008085 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 225937008086 Walker A/P-loop; other site 225937008087 ATP binding site [chemical binding]; other site 225937008088 Q-loop/lid; other site 225937008089 ABC transporter signature motif; other site 225937008090 Walker B; other site 225937008091 D-loop; other site 225937008092 H-loop/switch region; other site 225937008093 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 225937008094 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 225937008095 TM-ABC transporter signature motif; other site 225937008096 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 225937008097 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 225937008098 TM-ABC transporter signature motif; other site 225937008099 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 225937008100 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 225937008101 putative ligand binding site [chemical binding]; other site 225937008102 PaaX-like protein; Region: PaaX; pfam07848 225937008103 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 225937008104 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 225937008105 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 225937008106 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 225937008107 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 225937008108 NAD(P) binding site [chemical binding]; other site 225937008109 LDH/MDH dimer interface [polypeptide binding]; other site 225937008110 substrate binding site [chemical binding]; other site 225937008111 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937008112 putative substrate translocation pore; other site 225937008113 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225937008114 elongation factor P; Provisional; Region: PRK04542 225937008115 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 225937008116 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 225937008117 RNA binding site [nucleotide binding]; other site 225937008118 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 225937008119 RNA binding site [nucleotide binding]; other site 225937008120 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 225937008121 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 225937008122 tetramer interface [polypeptide binding]; other site 225937008123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937008124 catalytic residue [active] 225937008125 E3 Ubiquitin ligase; Region: GIDE; pfam12483 225937008126 LemA family; Region: LemA; cl00742 225937008127 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 225937008128 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 225937008129 substrate binding site [chemical binding]; other site 225937008130 oxyanion hole (OAH) forming residues; other site 225937008131 trimer interface [polypeptide binding]; other site 225937008132 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937008133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937008134 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 225937008135 dimerization interface [polypeptide binding]; other site 225937008136 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 225937008137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937008138 putative substrate translocation pore; other site 225937008139 Protein tyrosine phosphatase-like protein, PTPLA; Region: PTPLA; cl02156 225937008140 GTPase RsgA; Reviewed; Region: PRK01889 225937008141 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 225937008142 RNA binding site [nucleotide binding]; other site 225937008143 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 225937008144 GTPase/Zn-binding domain interface [polypeptide binding]; other site 225937008145 GTP/Mg2+ binding site [chemical binding]; other site 225937008146 G4 box; other site 225937008147 G5 box; other site 225937008148 G1 box; other site 225937008149 Switch I region; other site 225937008150 G2 box; other site 225937008151 G3 box; other site 225937008152 Switch II region; other site 225937008153 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 225937008154 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 225937008155 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225937008156 catalytic residues [active] 225937008157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937008158 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 225937008159 NAD(P) binding site [chemical binding]; other site 225937008160 active site 225937008161 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 225937008162 CAAX protease self-immunity; Region: Abi; pfam02517 225937008163 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 225937008164 short chain dehydrogenase; Provisional; Region: PRK06181 225937008165 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 225937008166 NADP binding site [chemical binding]; other site 225937008167 homodimer interface [polypeptide binding]; other site 225937008168 substrate binding site [chemical binding]; other site 225937008169 active site 225937008170 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225937008171 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225937008172 BCCT family transporter; Region: BCCT; pfam02028 225937008173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937008174 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 225937008175 putative substrate translocation pore; other site 225937008176 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 225937008177 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 225937008178 Methyltransferase domain; Region: Methyltransf_31; pfam13847 225937008179 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 225937008180 S-adenosylmethionine binding site [chemical binding]; other site 225937008181 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 225937008182 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 225937008183 PAS fold; Region: PAS_3; pfam08447 225937008184 putative active site [active] 225937008185 heme pocket [chemical binding]; other site 225937008186 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937008187 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937008188 metal binding site [ion binding]; metal-binding site 225937008189 active site 225937008190 I-site; other site 225937008191 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 225937008192 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 225937008193 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 225937008194 diiron binding motif [ion binding]; other site 225937008195 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 225937008196 endonuclease III; Region: ENDO3c; smart00478 225937008197 minor groove reading motif; other site 225937008198 helix-hairpin-helix signature motif; other site 225937008199 substrate binding pocket [chemical binding]; other site 225937008200 active site 225937008201 EamA-like transporter family; Region: EamA; pfam00892 225937008202 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 225937008203 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937008204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937008205 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 225937008206 NnrU protein; Region: NnrU; pfam07298 225937008207 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 225937008208 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 225937008209 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 225937008210 dimer interface [polypeptide binding]; other site 225937008211 FMN binding site [chemical binding]; other site 225937008212 Putative cyclase; Region: Cyclase; cl00814 225937008213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937008214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937008215 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 225937008216 putative effector binding pocket; other site 225937008217 dimerization interface [polypeptide binding]; other site 225937008218 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 225937008219 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 225937008220 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225937008221 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225937008222 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 225937008223 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 225937008224 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 225937008225 carboxyltransferase (CT) interaction site; other site 225937008226 biotinylation site [posttranslational modification]; other site 225937008227 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 225937008228 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 225937008229 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 225937008230 Surface antigen; Region: Bac_surface_Ag; pfam01103 225937008231 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 225937008232 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 225937008233 TrkA-N domain; Region: TrkA_N; pfam02254 225937008234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937008235 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937008236 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 225937008237 dimerization interface [polypeptide binding]; other site 225937008238 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 225937008239 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 225937008240 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 225937008241 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225937008242 SCP-2 sterol transfer family; Region: SCP2; pfam02036 225937008243 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 225937008244 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 225937008245 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937008246 DNA-binding site [nucleotide binding]; DNA binding site 225937008247 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 225937008248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937008249 homodimer interface [polypeptide binding]; other site 225937008250 catalytic residue [active] 225937008251 Methyltransferase domain; Region: Methyltransf_31; pfam13847 225937008252 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 225937008253 S-adenosylmethionine binding site [chemical binding]; other site 225937008254 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937008255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937008256 LysR substrate binding domain; Region: LysR_substrate; pfam03466 225937008257 dimerization interface [polypeptide binding]; other site 225937008258 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225937008259 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 225937008260 S-adenosylmethionine binding site [chemical binding]; other site 225937008261 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 225937008262 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 225937008263 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937008264 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937008265 metal binding site [ion binding]; metal-binding site 225937008266 active site 225937008267 I-site; other site 225937008268 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937008269 ligand binding site [chemical binding]; other site 225937008270 cytosine permease; Provisional; Region: codB; PRK11017 225937008271 Na binding site [ion binding]; other site 225937008272 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 225937008273 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 225937008274 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 225937008275 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 225937008276 cytosine deaminase; Provisional; Region: PRK09230 225937008277 active site 225937008278 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 225937008279 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 225937008280 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 225937008281 catalytic residues [active] 225937008282 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937008283 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937008284 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 225937008285 dimerization interface [polypeptide binding]; other site 225937008286 Putative transcription activator [Transcription]; Region: TenA; COG0819 225937008287 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 225937008288 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 225937008289 Transglycosylase; Region: Transgly; cl17702 225937008290 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 225937008291 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 225937008292 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 225937008293 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 225937008294 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 225937008295 NAD(P) binding site [chemical binding]; other site 225937008296 homotetramer interface [polypeptide binding]; other site 225937008297 homodimer interface [polypeptide binding]; other site 225937008298 active site 225937008299 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 225937008300 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 225937008301 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 225937008302 HSP70 interaction site [polypeptide binding]; other site 225937008303 von Willebrand factor type A domain; Region: VWA_2; pfam13519 225937008304 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 225937008305 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 225937008306 MarR family; Region: MarR; pfam01047 225937008307 Yqey-like protein; Region: YqeY; pfam09424 225937008308 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 225937008309 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 225937008310 tetramer interface [polypeptide binding]; other site 225937008311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937008312 catalytic residue [active] 225937008313 BCCT family transporter; Region: BCCT; pfam02028 225937008314 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 225937008315 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 225937008316 nucleophile elbow; other site 225937008317 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225937008318 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 225937008319 putative C-terminal domain interface [polypeptide binding]; other site 225937008320 putative GSH binding site (G-site) [chemical binding]; other site 225937008321 putative dimer interface [polypeptide binding]; other site 225937008322 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 225937008323 putative N-terminal domain interface [polypeptide binding]; other site 225937008324 putative dimer interface [polypeptide binding]; other site 225937008325 putative substrate binding pocket (H-site) [chemical binding]; other site 225937008326 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 225937008327 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225937008328 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 225937008329 TAP-like protein; Region: Abhydrolase_4; pfam08386 225937008330 choline dehydrogenase; Validated; Region: PRK02106 225937008331 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 225937008332 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 225937008333 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 225937008334 putative NAD(P) binding site [chemical binding]; other site 225937008335 active site 225937008336 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225937008337 PGAP1-like protein; Region: PGAP1; pfam07819 225937008338 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225937008339 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 225937008340 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 225937008341 Walker A/P-loop; other site 225937008342 ATP binding site [chemical binding]; other site 225937008343 Q-loop/lid; other site 225937008344 ABC transporter signature motif; other site 225937008345 Walker B; other site 225937008346 D-loop; other site 225937008347 H-loop/switch region; other site 225937008348 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 225937008349 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 225937008350 Walker A/P-loop; other site 225937008351 ATP binding site [chemical binding]; other site 225937008352 Q-loop/lid; other site 225937008353 ABC transporter signature motif; other site 225937008354 Walker B; other site 225937008355 D-loop; other site 225937008356 H-loop/switch region; other site 225937008357 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 225937008358 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 225937008359 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 225937008360 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937008361 dimer interface [polypeptide binding]; other site 225937008362 conserved gate region; other site 225937008363 putative PBP binding loops; other site 225937008364 ABC-ATPase subunit interface; other site 225937008365 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 225937008366 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937008367 dimer interface [polypeptide binding]; other site 225937008368 conserved gate region; other site 225937008369 putative PBP binding loops; other site 225937008370 ABC-ATPase subunit interface; other site 225937008371 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_10; cd08515 225937008372 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 225937008373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937008374 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 225937008375 dimerization interface [polypeptide binding]; other site 225937008376 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 225937008377 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 225937008378 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225937008379 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225937008380 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 225937008381 active site residue [active] 225937008382 MgtC family; Region: MgtC; pfam02308 225937008383 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 225937008384 putative hydrophobic ligand binding site [chemical binding]; other site 225937008385 protein interface [polypeptide binding]; other site 225937008386 gate; other site 225937008387 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 225937008388 putative hydrophobic ligand binding site [chemical binding]; other site 225937008389 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 225937008390 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 225937008391 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 225937008392 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 225937008393 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 225937008394 putative active site [active] 225937008395 putative CoA binding site [chemical binding]; other site 225937008396 nudix motif; other site 225937008397 metal binding site [ion binding]; metal-binding site 225937008398 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 225937008399 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 225937008400 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225937008401 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 225937008402 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 225937008403 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 225937008404 active site 225937008405 catalytic tetrad [active] 225937008406 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 225937008407 active site 225937008408 metal binding site [ion binding]; metal-binding site 225937008409 homotetramer interface [polypeptide binding]; other site 225937008410 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 225937008411 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225937008412 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225937008413 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 225937008414 non-specific DNA binding site [nucleotide binding]; other site 225937008415 salt bridge; other site 225937008416 sequence-specific DNA binding site [nucleotide binding]; other site 225937008417 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 225937008418 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 225937008419 ATP binding site [chemical binding]; other site 225937008420 putative Mg++ binding site [ion binding]; other site 225937008421 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 225937008422 nucleotide binding region [chemical binding]; other site 225937008423 ATP-binding site [chemical binding]; other site 225937008424 Double zinc ribbon; Region: DZR; pfam12773 225937008425 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 225937008426 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 225937008427 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 225937008428 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 225937008429 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225937008430 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937008431 ligand binding site [chemical binding]; other site 225937008432 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...; Region: CSP_CDS; cd04458 225937008433 DNA-binding site [nucleotide binding]; DNA binding site 225937008434 RNA-binding motif; other site 225937008435 TM2 domain; Region: TM2; cl00984 225937008436 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 225937008437 classical (c) SDRs; Region: SDR_c; cd05233 225937008438 NAD(P) binding site [chemical binding]; other site 225937008439 active site 225937008440 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937008441 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937008442 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 225937008443 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 225937008444 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 225937008445 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937008446 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937008447 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 225937008448 PEGA domain; Region: PEGA; pfam08308 225937008449 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 225937008450 SEC-C motif; Region: SEC-C; pfam02810 225937008451 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 225937008452 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225937008453 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937008454 putative substrate translocation pore; other site 225937008455 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 225937008456 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 225937008457 active site 225937008458 motif I; other site 225937008459 motif II; other site 225937008460 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; cl17915 225937008461 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 225937008462 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 225937008463 active site 225937008464 homotetramer interface [polypeptide binding]; other site 225937008465 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 225937008466 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 225937008467 active site 225937008468 homodimer interface [polypeptide binding]; other site 225937008469 catalytic site [active] 225937008470 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 225937008471 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 225937008472 classical (c) SDRs; Region: SDR_c; cd05233 225937008473 NAD(P) binding site [chemical binding]; other site 225937008474 active site 225937008475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 225937008476 MOSC domain; Region: MOSC; pfam03473 225937008477 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 225937008478 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 225937008479 Walker A motif; other site 225937008480 ATP binding site [chemical binding]; other site 225937008481 Walker B motif; other site 225937008482 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 225937008483 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; cl17173 225937008484 Methyltransferase domain; Region: Methyltransf_31; pfam13847 225937008485 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 225937008486 S-adenosylmethionine binding site [chemical binding]; other site 225937008487 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225937008488 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 225937008489 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 225937008490 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 225937008491 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 225937008492 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 225937008493 UreF; Region: UreF; pfam01730 225937008494 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 225937008495 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 225937008496 dimer interface [polypeptide binding]; other site 225937008497 catalytic residues [active] 225937008498 urease subunit alpha; Reviewed; Region: ureC; PRK13207 225937008499 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 225937008500 subunit interactions [polypeptide binding]; other site 225937008501 active site 225937008502 flap region; other site 225937008503 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 225937008504 gamma-beta subunit interface [polypeptide binding]; other site 225937008505 alpha-beta subunit interface [polypeptide binding]; other site 225937008506 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 225937008507 alpha-gamma subunit interface [polypeptide binding]; other site 225937008508 beta-gamma subunit interface [polypeptide binding]; other site 225937008509 UreD urease accessory protein; Region: UreD; pfam01774 225937008510 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 225937008511 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 225937008512 Walker A/P-loop; other site 225937008513 ATP binding site [chemical binding]; other site 225937008514 Q-loop/lid; other site 225937008515 ABC transporter signature motif; other site 225937008516 Walker B; other site 225937008517 D-loop; other site 225937008518 H-loop/switch region; other site 225937008519 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 225937008520 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 225937008521 Walker A/P-loop; other site 225937008522 ATP binding site [chemical binding]; other site 225937008523 Q-loop/lid; other site 225937008524 ABC transporter signature motif; other site 225937008525 Walker B; other site 225937008526 D-loop; other site 225937008527 H-loop/switch region; other site 225937008528 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 225937008529 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 225937008530 TM-ABC transporter signature motif; other site 225937008531 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 225937008532 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 225937008533 TM-ABC transporter signature motif; other site 225937008534 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225937008535 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 225937008536 putative ligand binding site [chemical binding]; other site 225937008537 allophanate hydrolase; Provisional; Region: PRK08186 225937008538 Amidase; Region: Amidase; cl11426 225937008539 Transcriptional regulators [Transcription]; Region: GntR; COG1802 225937008540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937008541 DNA-binding site [nucleotide binding]; DNA binding site 225937008542 FCD domain; Region: FCD; pfam07729 225937008543 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 225937008544 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 225937008545 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 225937008546 Cysteine-rich domain; Region: CCG; pfam02754 225937008547 Cysteine-rich domain; Region: CCG; pfam02754 225937008548 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 225937008549 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 225937008550 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 225937008551 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 225937008552 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 225937008553 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 225937008554 EamA-like transporter family; Region: EamA; pfam00892 225937008555 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 225937008556 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225937008557 dimer interface [polypeptide binding]; other site 225937008558 active site 225937008559 metal binding site [ion binding]; metal-binding site 225937008560 glutathione binding site [chemical binding]; other site 225937008561 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 225937008562 Fatty acid desaturase; Region: FA_desaturase; pfam00487 225937008563 Di-iron ligands [ion binding]; other site 225937008564 Transcriptional regulators [Transcription]; Region: GntR; COG1802 225937008565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937008566 DNA-binding site [nucleotide binding]; DNA binding site 225937008567 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 225937008568 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 225937008569 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 225937008570 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225937008571 active site 225937008572 metal binding site [ion binding]; metal-binding site 225937008573 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937008574 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 225937008575 putative ADP-binding pocket [chemical binding]; other site 225937008576 Protein of unknown function (DUF523); Region: DUF523; pfam04463 225937008577 Uncharacterized conserved protein [Function unknown]; Region: COG3272 225937008578 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 225937008579 Protein of unknown function, DUF481; Region: DUF481; pfam04338 225937008580 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 225937008581 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 225937008582 active site residue [active] 225937008583 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 225937008584 Thioredoxin; Region: Thioredoxin_4; pfam13462 225937008585 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 225937008586 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 225937008587 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 225937008588 FMN binding site [chemical binding]; other site 225937008589 substrate binding site [chemical binding]; other site 225937008590 putative catalytic residue [active] 225937008591 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 225937008592 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937008593 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937008594 dimer interface [polypeptide binding]; other site 225937008595 putative CheW interface [polypeptide binding]; other site 225937008596 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937008597 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937008598 substrate binding pocket [chemical binding]; other site 225937008599 membrane-bound complex binding site; other site 225937008600 hinge residues; other site 225937008601 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 225937008602 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 225937008603 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 225937008604 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 225937008605 HSP70 interaction site [polypeptide binding]; other site 225937008606 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 225937008607 substrate binding site [polypeptide binding]; other site 225937008608 dimer interface [polypeptide binding]; other site 225937008609 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 225937008610 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 225937008611 intersubunit interface [polypeptide binding]; other site 225937008612 active site 225937008613 zinc binding site [ion binding]; other site 225937008614 Na+ binding site [ion binding]; other site 225937008615 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 225937008616 Phosphoglycerate kinase; Region: PGK; pfam00162 225937008617 substrate binding site [chemical binding]; other site 225937008618 hinge regions; other site 225937008619 ADP binding site [chemical binding]; other site 225937008620 catalytic site [active] 225937008621 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 225937008622 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 225937008623 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 225937008624 transketolase; Reviewed; Region: PRK12753 225937008625 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 225937008626 TPP-binding site [chemical binding]; other site 225937008627 dimer interface [polypeptide binding]; other site 225937008628 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 225937008629 PYR/PP interface [polypeptide binding]; other site 225937008630 dimer interface [polypeptide binding]; other site 225937008631 TPP binding site [chemical binding]; other site 225937008632 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 225937008633 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 225937008634 dimerization interface [polypeptide binding]; other site 225937008635 putative DNA binding site [nucleotide binding]; other site 225937008636 putative Zn2+ binding site [ion binding]; other site 225937008637 Methyltransferase domain; Region: Methyltransf_31; pfam13847 225937008638 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 225937008639 S-adenosylmethionine binding site [chemical binding]; other site 225937008640 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 225937008641 S-adenosylmethionine synthetase; Validated; Region: PRK05250 225937008642 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 225937008643 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 225937008644 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 225937008645 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 225937008646 homotetramer interface [polypeptide binding]; other site 225937008647 ligand binding site [chemical binding]; other site 225937008648 catalytic site [active] 225937008649 NAD binding site [chemical binding]; other site 225937008650 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 225937008651 FAD binding site [chemical binding]; other site 225937008652 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 225937008653 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937008654 substrate binding pocket [chemical binding]; other site 225937008655 membrane-bound complex binding site; other site 225937008656 hinge residues; other site 225937008657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937008658 dimer interface [polypeptide binding]; other site 225937008659 conserved gate region; other site 225937008660 putative PBP binding loops; other site 225937008661 ABC-ATPase subunit interface; other site 225937008662 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 225937008663 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 225937008664 Walker A/P-loop; other site 225937008665 ATP binding site [chemical binding]; other site 225937008666 Q-loop/lid; other site 225937008667 ABC transporter signature motif; other site 225937008668 Walker B; other site 225937008669 D-loop; other site 225937008670 H-loop/switch region; other site 225937008671 Uncharacterized conserved protein [Function unknown]; Region: COG4104 225937008672 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 225937008673 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 225937008674 inhibitor-cofactor binding pocket; inhibition site 225937008675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937008676 catalytic residue [active] 225937008677 RNA methyltransferase, RsmE family; Region: TIGR00046 225937008678 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 225937008679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 225937008680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 225937008681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 225937008682 HDOD domain; Region: HDOD; pfam08668 225937008683 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 225937008684 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 225937008685 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 225937008686 glycerate dehydrogenase; Provisional; Region: PRK06487 225937008687 putative ligand binding site [chemical binding]; other site 225937008688 putative NAD binding site [chemical binding]; other site 225937008689 catalytic site [active] 225937008690 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 225937008691 PrkA family serine protein kinase; Provisional; Region: PRK15455 225937008692 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 225937008693 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 225937008694 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 225937008695 hypothetical protein; Provisional; Region: PRK05325 225937008696 SpoVR family protein; Provisional; Region: PRK11767 225937008697 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 225937008698 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937008699 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 225937008700 ATP binding site [chemical binding]; other site 225937008701 Mg2+ binding site [ion binding]; other site 225937008702 G-X-G motif; other site 225937008703 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225937008704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937008705 active site 225937008706 phosphorylation site [posttranslational modification] 225937008707 intermolecular recognition site; other site 225937008708 dimerization interface [polypeptide binding]; other site 225937008709 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937008710 DNA binding site [nucleotide binding] 225937008711 Predicted membrane protein [Function unknown]; Region: COG3212 225937008712 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 225937008713 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225937008714 metal binding site [ion binding]; metal-binding site 225937008715 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 225937008716 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 225937008717 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 225937008718 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 225937008719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937008720 catalytic residue [active] 225937008721 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225937008722 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 225937008723 N-terminal plug; other site 225937008724 ligand-binding site [chemical binding]; other site 225937008725 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 225937008726 LrgA family; Region: LrgA; pfam03788 225937008727 Sodium Bile acid symporter family; Region: SBF; cl17470 225937008728 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 225937008729 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 225937008730 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 225937008731 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 225937008732 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937008733 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 225937008734 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 225937008735 FAD binding pocket [chemical binding]; other site 225937008736 FAD binding motif [chemical binding]; other site 225937008737 phosphate binding motif [ion binding]; other site 225937008738 beta-alpha-beta structure motif; other site 225937008739 NAD binding pocket [chemical binding]; other site 225937008740 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 225937008741 catalytic loop [active] 225937008742 iron binding site [ion binding]; other site 225937008743 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 225937008744 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 225937008745 putative di-iron ligands [ion binding]; other site 225937008746 Predicted transcriptional regulator [Transcription]; Region: COG1959 225937008747 Transcriptional regulator; Region: Rrf2; cl17282 225937008748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 225937008749 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 225937008750 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 225937008751 FeS/SAM binding site; other site 225937008752 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 225937008753 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 225937008754 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 225937008755 FeS/SAM binding site; other site 225937008756 HemN C-terminal domain; Region: HemN_C; pfam06969 225937008757 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 225937008758 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 225937008759 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 225937008760 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 225937008761 Walker A/P-loop; other site 225937008762 ATP binding site [chemical binding]; other site 225937008763 Q-loop/lid; other site 225937008764 ABC transporter signature motif; other site 225937008765 Walker B; other site 225937008766 D-loop; other site 225937008767 H-loop/switch region; other site 225937008768 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 225937008769 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937008770 dimer interface [polypeptide binding]; other site 225937008771 conserved gate region; other site 225937008772 putative PBP binding loops; other site 225937008773 ABC-ATPase subunit interface; other site 225937008774 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937008775 dimer interface [polypeptide binding]; other site 225937008776 conserved gate region; other site 225937008777 putative PBP binding loops; other site 225937008778 ABC-ATPase subunit interface; other site 225937008779 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 225937008780 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 225937008781 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 225937008782 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 225937008783 trimer interface; other site 225937008784 sugar binding site [chemical binding]; other site 225937008785 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937008786 dimerization interface [polypeptide binding]; other site 225937008787 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937008788 dimer interface [polypeptide binding]; other site 225937008789 phosphorylation site [posttranslational modification] 225937008790 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 225937008791 ATP binding site [chemical binding]; other site 225937008792 Mg2+ binding site [ion binding]; other site 225937008793 G-X-G motif; other site 225937008794 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225937008795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937008796 active site 225937008797 phosphorylation site [posttranslational modification] 225937008798 intermolecular recognition site; other site 225937008799 dimerization interface [polypeptide binding]; other site 225937008800 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937008801 DNA binding site [nucleotide binding] 225937008802 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937008803 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 225937008804 membrane-bound complex binding site; other site 225937008805 hinge residues; other site 225937008806 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 225937008807 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 225937008808 motif II; other site 225937008809 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 225937008810 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 225937008811 motif II; other site 225937008812 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 225937008813 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 225937008814 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 225937008815 Cu(I) binding site [ion binding]; other site 225937008816 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 225937008817 DNA photolyase; Region: DNA_photolyase; pfam00875 225937008818 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 225937008819 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 225937008820 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 225937008821 DNA binding residues [nucleotide binding] 225937008822 dimer interface [polypeptide binding]; other site 225937008823 putative metal binding site [ion binding]; other site 225937008824 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 225937008825 Membrane transport protein; Region: Mem_trans; cl09117 225937008826 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 225937008827 ligand binding site [chemical binding]; other site 225937008828 flexible hinge region; other site 225937008829 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 225937008830 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 225937008831 Haemolysin-III related; Region: HlyIII; cl03831 225937008832 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 225937008833 EVE domain; Region: EVE; cl00728 225937008834 Ion transport protein; Region: Ion_trans; pfam00520 225937008835 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 225937008836 NnrS protein; Region: NnrS; pfam05940 225937008837 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 225937008838 active site 2 [active] 225937008839 active site 1 [active] 225937008840 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 225937008841 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 225937008842 dimer interface [polypeptide binding]; other site 225937008843 active site 225937008844 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937008845 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937008846 putative protease; Provisional; Region: PRK15452 225937008847 Peptidase family U32; Region: Peptidase_U32; pfam01136 225937008848 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 225937008849 putative ABC transporter; Region: ycf24; CHL00085 225937008850 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 225937008851 FeS assembly ATPase SufC; Region: sufC; TIGR01978 225937008852 Walker A/P-loop; other site 225937008853 ATP binding site [chemical binding]; other site 225937008854 Q-loop/lid; other site 225937008855 ABC transporter signature motif; other site 225937008856 Walker B; other site 225937008857 D-loop; other site 225937008858 H-loop/switch region; other site 225937008859 FeS assembly protein SufD; Region: sufD; TIGR01981 225937008860 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 225937008861 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 225937008862 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 225937008863 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225937008864 catalytic residue [active] 225937008865 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 225937008866 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 225937008867 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 225937008868 LPP20 lipoprotein; Region: LPP20; pfam02169 225937008869 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 225937008870 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 225937008871 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 225937008872 active site 225937008873 NTP binding site [chemical binding]; other site 225937008874 metal binding triad [ion binding]; metal-binding site 225937008875 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 225937008876 pteridine reductase; Provisional; Region: PRK09135 225937008877 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 225937008878 NADP binding site [chemical binding]; other site 225937008879 substrate binding pocket [chemical binding]; other site 225937008880 active site 225937008881 putative acyltransferase; Provisional; Region: PRK05790 225937008882 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 225937008883 dimer interface [polypeptide binding]; other site 225937008884 active site 225937008885 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 225937008886 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 225937008887 Walker A/P-loop; other site 225937008888 ATP binding site [chemical binding]; other site 225937008889 Q-loop/lid; other site 225937008890 ABC transporter signature motif; other site 225937008891 Walker B; other site 225937008892 D-loop; other site 225937008893 H-loop/switch region; other site 225937008894 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 225937008895 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 225937008896 ABC-ATPase subunit interface; other site 225937008897 dimer interface [polypeptide binding]; other site 225937008898 putative PBP binding regions; other site 225937008899 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 225937008900 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 225937008901 intersubunit interface [polypeptide binding]; other site 225937008902 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 225937008903 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 225937008904 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 225937008905 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 225937008906 HmuY protein; Region: HmuY; pfam14064 225937008907 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 225937008908 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 225937008909 N-terminal plug; other site 225937008910 ligand-binding site [chemical binding]; other site 225937008911 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; cd00557 225937008912 SecA binding site; other site 225937008913 Preprotein binding site; other site 225937008914 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 225937008915 active site residue [active] 225937008916 phosphoglyceromutase; Provisional; Region: PRK05434 225937008917 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 225937008918 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 225937008919 Peptidase family M23; Region: Peptidase_M23; pfam01551 225937008920 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 225937008921 C-terminal peptidase (prc); Region: prc; TIGR00225 225937008922 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 225937008923 protein binding site [polypeptide binding]; other site 225937008924 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 225937008925 Catalytic dyad [active] 225937008926 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 225937008927 NodB motif; other site 225937008928 putative active site [active] 225937008929 putative catalytic site [active] 225937008930 Zn binding site [ion binding]; other site 225937008931 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 225937008932 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 225937008933 substrate binding site [chemical binding]; other site 225937008934 glutamase interaction surface [polypeptide binding]; other site 225937008935 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 225937008936 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 225937008937 catalytic residues [active] 225937008938 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 225937008939 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 225937008940 putative active site [active] 225937008941 oxyanion strand; other site 225937008942 catalytic triad [active] 225937008943 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 225937008944 putative active site pocket [active] 225937008945 4-fold oligomerization interface [polypeptide binding]; other site 225937008946 metal binding residues [ion binding]; metal-binding site 225937008947 3-fold/trimer interface [polypeptide binding]; other site 225937008948 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 225937008949 putative hydrophobic ligand binding site [chemical binding]; other site 225937008950 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 225937008951 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 225937008952 adenine DNA glycosylase; Provisional; Region: PRK10880 225937008953 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 225937008954 minor groove reading motif; other site 225937008955 helix-hairpin-helix signature motif; other site 225937008956 substrate binding pocket [chemical binding]; other site 225937008957 active site 225937008958 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 225937008959 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 225937008960 DNA binding and oxoG recognition site [nucleotide binding] 225937008961 oxidative damage protection protein; Provisional; Region: PRK05408 225937008962 molybdenum-pterin binding domain; Region: Mop; TIGR00638 225937008963 molybdenum-pterin binding domain; Region: Mop; TIGR00638 225937008964 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 225937008965 Ligand Binding Site [chemical binding]; other site 225937008966 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 225937008967 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 225937008968 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 225937008969 LysE type translocator; Region: LysE; cl00565 225937008970 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225937008971 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 225937008972 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 225937008973 Cysteine-rich domain; Region: CCG; pfam02754 225937008974 Cysteine-rich domain; Region: CCG; pfam02754 225937008975 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 225937008976 FAD binding domain; Region: FAD_binding_4; pfam01565 225937008977 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 225937008978 FAD binding domain; Region: FAD_binding_4; pfam01565 225937008979 Domain of unknown function (DUF336); Region: DUF336; pfam03928 225937008980 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 225937008981 DctM-like transporters; Region: DctM; pfam06808 225937008982 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 225937008983 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 225937008984 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 225937008985 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937008986 DNA-binding site [nucleotide binding]; DNA binding site 225937008987 FCD domain; Region: FCD; pfam07729 225937008988 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 225937008989 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 225937008990 Walker A/P-loop; other site 225937008991 ATP binding site [chemical binding]; other site 225937008992 Q-loop/lid; other site 225937008993 ABC transporter signature motif; other site 225937008994 Walker B; other site 225937008995 D-loop; other site 225937008996 H-loop/switch region; other site 225937008997 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937008998 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937008999 substrate binding pocket [chemical binding]; other site 225937009000 membrane-bound complex binding site; other site 225937009001 hinge residues; other site 225937009002 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 225937009003 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937009004 dimer interface [polypeptide binding]; other site 225937009005 conserved gate region; other site 225937009006 putative PBP binding loops; other site 225937009007 ABC-ATPase subunit interface; other site 225937009008 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 225937009009 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937009010 dimer interface [polypeptide binding]; other site 225937009011 conserved gate region; other site 225937009012 putative PBP binding loops; other site 225937009013 ABC-ATPase subunit interface; other site 225937009014 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 225937009015 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 225937009016 active site 225937009017 Zn binding site [ion binding]; other site 225937009018 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225937009019 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937009020 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937009021 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937009022 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937009023 WHG domain; Region: WHG; pfam13305 225937009024 succinylarginine dihydrolase; Provisional; Region: PRK13281 225937009025 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 225937009026 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 225937009027 NAD(P) binding site [chemical binding]; other site 225937009028 catalytic residues [active] 225937009029 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 225937009030 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 225937009031 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 225937009032 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 225937009033 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 225937009034 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 225937009035 inhibitor-cofactor binding pocket; inhibition site 225937009036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937009037 catalytic residue [active] 225937009038 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 225937009039 active site 225937009040 catalytic site [active] 225937009041 substrate binding site [chemical binding]; other site 225937009042 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 225937009043 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 225937009044 GIY-YIG motif/motif A; other site 225937009045 active site 225937009046 catalytic site [active] 225937009047 putative DNA binding site [nucleotide binding]; other site 225937009048 metal binding site [ion binding]; metal-binding site 225937009049 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 225937009050 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 225937009051 E3 interaction surface; other site 225937009052 lipoyl attachment site [posttranslational modification]; other site 225937009053 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 225937009054 E3 interaction surface; other site 225937009055 lipoyl attachment site [posttranslational modification]; other site 225937009056 e3 binding domain; Region: E3_binding; pfam02817 225937009057 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 225937009058 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 225937009059 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 225937009060 dimer interface [polypeptide binding]; other site 225937009061 TPP-binding site [chemical binding]; other site 225937009062 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 225937009063 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 225937009064 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 225937009065 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 225937009066 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 225937009067 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937009068 Walker A motif; other site 225937009069 ATP binding site [chemical binding]; other site 225937009070 Walker B motif; other site 225937009071 arginine finger; other site 225937009072 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 225937009073 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 225937009074 MarR family; Region: MarR; pfam01047 225937009075 MarR family; Region: MarR_2; cl17246 225937009076 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 225937009077 TPR motif; other site 225937009078 TPR repeat; Region: TPR_11; pfam13414 225937009079 binding surface 225937009080 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 225937009081 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 225937009082 dimerization interface [polypeptide binding]; other site 225937009083 ligand binding site [chemical binding]; other site 225937009084 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 225937009085 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 225937009086 TM-ABC transporter signature motif; other site 225937009087 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 225937009088 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 225937009089 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 225937009090 TM-ABC transporter signature motif; other site 225937009091 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 225937009092 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 225937009093 Walker A/P-loop; other site 225937009094 ATP binding site [chemical binding]; other site 225937009095 Q-loop/lid; other site 225937009096 ABC transporter signature motif; other site 225937009097 Walker B; other site 225937009098 D-loop; other site 225937009099 H-loop/switch region; other site 225937009100 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 225937009101 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 225937009102 Walker A/P-loop; other site 225937009103 ATP binding site [chemical binding]; other site 225937009104 Q-loop/lid; other site 225937009105 ABC transporter signature motif; other site 225937009106 Walker B; other site 225937009107 D-loop; other site 225937009108 H-loop/switch region; other site 225937009109 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 225937009110 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 225937009111 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225937009112 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 225937009113 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225937009114 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 225937009115 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 225937009116 RNase E interface [polypeptide binding]; other site 225937009117 trimer interface [polypeptide binding]; other site 225937009118 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 225937009119 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 225937009120 RNase E interface [polypeptide binding]; other site 225937009121 trimer interface [polypeptide binding]; other site 225937009122 active site 225937009123 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 225937009124 putative nucleic acid binding region [nucleotide binding]; other site 225937009125 G-X-X-G motif; other site 225937009126 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 225937009127 RNA binding site [nucleotide binding]; other site 225937009128 domain interface; other site 225937009129 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 225937009130 16S/18S rRNA binding site [nucleotide binding]; other site 225937009131 S13e-L30e interaction site [polypeptide binding]; other site 225937009132 25S rRNA binding site [nucleotide binding]; other site 225937009133 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 225937009134 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 225937009135 RNA binding site [nucleotide binding]; other site 225937009136 active site 225937009137 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 225937009138 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 225937009139 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 225937009140 translation initiation factor IF-2; Region: IF-2; TIGR00487 225937009141 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 225937009142 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 225937009143 G1 box; other site 225937009144 putative GEF interaction site [polypeptide binding]; other site 225937009145 GTP/Mg2+ binding site [chemical binding]; other site 225937009146 Switch I region; other site 225937009147 G2 box; other site 225937009148 G3 box; other site 225937009149 Switch II region; other site 225937009150 G4 box; other site 225937009151 G5 box; other site 225937009152 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 225937009153 Translation-initiation factor 2; Region: IF-2; pfam11987 225937009154 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 225937009155 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 225937009156 NusA N-terminal domain; Region: NusA_N; pfam08529 225937009157 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 225937009158 RNA binding site [nucleotide binding]; other site 225937009159 homodimer interface [polypeptide binding]; other site 225937009160 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 225937009161 G-X-X-G motif; other site 225937009162 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 225937009163 G-X-X-G motif; other site 225937009164 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 225937009165 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 225937009166 ribosome maturation protein RimP; Reviewed; Region: PRK00092 225937009167 Sm and related proteins; Region: Sm_like; cl00259 225937009168 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 225937009169 putative oligomer interface [polypeptide binding]; other site 225937009170 putative RNA binding site [nucleotide binding]; other site 225937009171 Preprotein translocase SecG subunit; Region: SecG; pfam03840 225937009172 triosephosphate isomerase; Provisional; Region: PRK14567 225937009173 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 225937009174 substrate binding site [chemical binding]; other site 225937009175 dimer interface [polypeptide binding]; other site 225937009176 catalytic triad [active] 225937009177 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 225937009178 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 225937009179 active site 225937009180 substrate binding site [chemical binding]; other site 225937009181 metal binding site [ion binding]; metal-binding site 225937009182 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 225937009183 dihydropteroate synthase; Region: DHPS; TIGR01496 225937009184 substrate binding pocket [chemical binding]; other site 225937009185 dimer interface [polypeptide binding]; other site 225937009186 inhibitor binding site; inhibition site 225937009187 FtsH Extracellular; Region: FtsH_ext; pfam06480 225937009188 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 225937009189 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937009190 Walker A motif; other site 225937009191 ATP binding site [chemical binding]; other site 225937009192 Walker B motif; other site 225937009193 arginine finger; other site 225937009194 Peptidase family M41; Region: Peptidase_M41; pfam01434 225937009195 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 225937009196 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 225937009197 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 225937009198 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 225937009199 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 225937009200 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225937009201 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 225937009202 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 225937009203 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225937009204 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225937009205 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 225937009206 IMP binding site; other site 225937009207 dimer interface [polypeptide binding]; other site 225937009208 interdomain contacts; other site 225937009209 partial ornithine binding site; other site 225937009210 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 225937009211 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 225937009212 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 225937009213 catalytic site [active] 225937009214 subunit interface [polypeptide binding]; other site 225937009215 dihydrodipicolinate reductase; Provisional; Region: PRK00048 225937009216 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 225937009217 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 225937009218 chaperone protein DnaJ; Provisional; Region: PRK10767 225937009219 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 225937009220 HSP70 interaction site [polypeptide binding]; other site 225937009221 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 225937009222 substrate binding site [polypeptide binding]; other site 225937009223 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 225937009224 Zn binding sites [ion binding]; other site 225937009225 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 225937009226 dimer interface [polypeptide binding]; other site 225937009227 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 225937009228 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 225937009229 nucleotide binding site [chemical binding]; other site 225937009230 GrpE; Region: GrpE; pfam01025 225937009231 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 225937009232 dimer interface [polypeptide binding]; other site 225937009233 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 225937009234 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 225937009235 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 225937009236 Walker A/P-loop; other site 225937009237 ATP binding site [chemical binding]; other site 225937009238 Q-loop/lid; other site 225937009239 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 225937009240 ABC transporter signature motif; other site 225937009241 Walker B; other site 225937009242 D-loop; other site 225937009243 H-loop/switch region; other site 225937009244 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 225937009245 metal binding site 2 [ion binding]; metal-binding site 225937009246 putative DNA binding helix; other site 225937009247 metal binding site 1 [ion binding]; metal-binding site 225937009248 dimer interface [polypeptide binding]; other site 225937009249 structural Zn2+ binding site [ion binding]; other site 225937009250 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 225937009251 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 225937009252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 225937009253 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 225937009254 putative coenzyme Q binding site [chemical binding]; other site 225937009255 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 225937009256 Na2 binding site [ion binding]; other site 225937009257 putative substrate binding site 1 [chemical binding]; other site 225937009258 Na binding site 1 [ion binding]; other site 225937009259 putative substrate binding site 2 [chemical binding]; other site 225937009260 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 225937009261 SmpB-tmRNA interface; other site 225937009262 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 225937009263 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 225937009264 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 225937009265 integrase; Provisional; Region: int; PHA02601 225937009266 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 225937009267 active site 225937009268 DNA binding site [nucleotide binding] 225937009269 Int/Topo IB signature motif; other site 225937009270 Replication initiation factor; Region: Rep_trans; pfam02486 225937009271 Zonular occludens toxin (Zot); Region: Zot; cl17485 225937009272 tRNA 2'-O-methylase; Reviewed; Region: PRK12703 225937009273 Helix-turn-helix domain; Region: HTH_17; cl17695 225937009274 Predicted transcriptional regulator [Transcription]; Region: COG2932 225937009275 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 225937009276 sequence-specific DNA binding site [nucleotide binding]; other site 225937009277 salt bridge; other site 225937009278 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 225937009279 Catalytic site [active] 225937009280 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 225937009281 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 225937009282 active site 225937009283 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 225937009284 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937009285 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937009286 substrate binding pocket [chemical binding]; other site 225937009287 membrane-bound complex binding site; other site 225937009288 hinge residues; other site 225937009289 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 225937009290 C factor cell-cell signaling protein; Provisional; Region: PRK09009 225937009291 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 225937009292 NADP binding site [chemical binding]; other site 225937009293 homodimer interface [polypeptide binding]; other site 225937009294 active site 225937009295 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 225937009296 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225937009297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937009298 active site 225937009299 phosphorylation site [posttranslational modification] 225937009300 intermolecular recognition site; other site 225937009301 dimerization interface [polypeptide binding]; other site 225937009302 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 225937009303 acetolactate synthase; Reviewed; Region: PRK08322 225937009304 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 225937009305 PYR/PP interface [polypeptide binding]; other site 225937009306 dimer interface [polypeptide binding]; other site 225937009307 TPP binding site [chemical binding]; other site 225937009308 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 225937009309 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 225937009310 TPP-binding site [chemical binding]; other site 225937009311 dimer interface [polypeptide binding]; other site 225937009312 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 225937009313 malate:quinone oxidoreductase; Validated; Region: PRK05257 225937009314 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 225937009315 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 225937009316 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 225937009317 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 225937009318 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 225937009319 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 225937009320 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225937009321 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 225937009322 putative acyl-acceptor binding pocket; other site 225937009323 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 225937009324 Moco binding site; other site 225937009325 metal coordination site [ion binding]; other site 225937009326 dimerization interface [polypeptide binding]; other site 225937009327 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 225937009328 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 225937009329 methionine sulfoxide reductase B; Provisional; Region: PRK00222 225937009330 SelR domain; Region: SelR; pfam01641 225937009331 methionine sulfoxide reductase A; Provisional; Region: PRK14054 225937009332 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 225937009333 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 225937009334 Chromate transporter; Region: Chromate_transp; pfam02417 225937009335 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 225937009336 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225937009337 putative active site [active] 225937009338 putative metal binding site [ion binding]; other site 225937009339 Putative integral membrane protein DUF46; Region: DUF46; cl17511 225937009340 fumarate hydratase; Reviewed; Region: fumC; PRK00485 225937009341 Class II fumarases; Region: Fumarase_classII; cd01362 225937009342 active site 225937009343 tetramer interface [polypeptide binding]; other site 225937009344 PAS domain S-box; Region: sensory_box; TIGR00229 225937009345 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 225937009346 putative active site [active] 225937009347 heme pocket [chemical binding]; other site 225937009348 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937009349 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937009350 dimer interface [polypeptide binding]; other site 225937009351 phosphorylation site [posttranslational modification] 225937009352 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 225937009353 ATP binding site [chemical binding]; other site 225937009354 Mg2+ binding site [ion binding]; other site 225937009355 G-X-G motif; other site 225937009356 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225937009357 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937009358 active site 225937009359 phosphorylation site [posttranslational modification] 225937009360 intermolecular recognition site; other site 225937009361 dimerization interface [polypeptide binding]; other site 225937009362 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 225937009363 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 225937009364 putative active site [active] 225937009365 metal binding site [ion binding]; metal-binding site 225937009366 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 225937009367 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225937009368 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 225937009369 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 225937009370 FeS/SAM binding site; other site 225937009371 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 225937009372 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 225937009373 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 225937009374 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 225937009375 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 225937009376 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937009377 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937009378 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 225937009379 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 225937009380 NADP binding site [chemical binding]; other site 225937009381 dimer interface [polypeptide binding]; other site 225937009382 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 225937009383 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 225937009384 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 225937009385 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 225937009386 NAD(P) binding site [chemical binding]; other site 225937009387 catalytic residues [active] 225937009388 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 225937009389 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 225937009390 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 225937009391 urea carboxylase; Region: urea_carbox; TIGR02712 225937009392 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225937009393 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225937009394 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 225937009395 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 225937009396 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 225937009397 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 225937009398 carboxyltransferase (CT) interaction site; other site 225937009399 biotinylation site [posttranslational modification]; other site 225937009400 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 225937009401 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 225937009402 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937009403 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937009404 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 225937009405 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937009406 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937009407 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 225937009408 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 225937009409 DNA binding site [nucleotide binding] 225937009410 active site 225937009411 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 225937009412 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 225937009413 ligand binding site [chemical binding]; other site 225937009414 flexible hinge region; other site 225937009415 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 225937009416 putative switch regulator; other site 225937009417 non-specific DNA interactions [nucleotide binding]; other site 225937009418 DNA binding site [nucleotide binding] 225937009419 sequence specific DNA binding site [nucleotide binding]; other site 225937009420 putative cAMP binding site [chemical binding]; other site 225937009421 aldolase II superfamily protein; Provisional; Region: PRK07044 225937009422 intersubunit interface [polypeptide binding]; other site 225937009423 active site 225937009424 Zn2+ binding site [ion binding]; other site 225937009425 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 225937009426 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 225937009427 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 225937009428 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 225937009429 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 225937009430 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 225937009431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937009432 dimer interface [polypeptide binding]; other site 225937009433 conserved gate region; other site 225937009434 putative PBP binding loops; other site 225937009435 ABC-ATPase subunit interface; other site 225937009436 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 225937009437 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 225937009438 Walker A/P-loop; other site 225937009439 ATP binding site [chemical binding]; other site 225937009440 Q-loop/lid; other site 225937009441 ABC transporter signature motif; other site 225937009442 Walker B; other site 225937009443 D-loop; other site 225937009444 H-loop/switch region; other site 225937009445 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 225937009446 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 225937009447 dimer interface [polypeptide binding]; other site 225937009448 Trp docking motif [polypeptide binding]; other site 225937009449 active site 225937009450 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937009451 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937009452 substrate binding pocket [chemical binding]; other site 225937009453 membrane-bound complex binding site; other site 225937009454 hinge residues; other site 225937009455 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 225937009456 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 225937009457 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 225937009458 dimer interface [polypeptide binding]; other site 225937009459 Trp docking motif [polypeptide binding]; other site 225937009460 active site 225937009461 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 225937009462 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225937009463 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225937009464 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 225937009465 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225937009466 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225937009467 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225937009468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937009469 active site 225937009470 phosphorylation site [posttranslational modification] 225937009471 intermolecular recognition site; other site 225937009472 dimerization interface [polypeptide binding]; other site 225937009473 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937009474 DNA binding residues [nucleotide binding] 225937009475 dimerization interface [polypeptide binding]; other site 225937009476 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937009477 dimerization interface [polypeptide binding]; other site 225937009478 Histidine kinase; Region: HisKA_3; pfam07730 225937009479 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 225937009480 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 225937009481 ATP binding site [chemical binding]; other site 225937009482 Mg2+ binding site [ion binding]; other site 225937009483 G-X-G motif; other site 225937009484 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225937009485 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 225937009486 ligand binding site [chemical binding]; other site 225937009487 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 225937009488 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 225937009489 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 225937009490 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 225937009491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937009492 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 225937009493 Walker A/P-loop; other site 225937009494 ATP binding site [chemical binding]; other site 225937009495 Q-loop/lid; other site 225937009496 ABC transporter signature motif; other site 225937009497 Walker B; other site 225937009498 D-loop; other site 225937009499 H-loop/switch region; other site 225937009500 ABC-2 type transporter; Region: ABC2_membrane; cl17235 225937009501 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 225937009502 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 225937009503 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 225937009504 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 225937009505 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 225937009506 putative ligand binding site [chemical binding]; other site 225937009507 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 225937009508 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 225937009509 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937009510 Walker A/P-loop; other site 225937009511 ATP binding site [chemical binding]; other site 225937009512 Q-loop/lid; other site 225937009513 ABC transporter signature motif; other site 225937009514 Walker B; other site 225937009515 D-loop; other site 225937009516 H-loop/switch region; other site 225937009517 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 225937009518 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937009519 dimer interface [polypeptide binding]; other site 225937009520 conserved gate region; other site 225937009521 putative PBP binding loops; other site 225937009522 ABC-ATPase subunit interface; other site 225937009523 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937009524 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 225937009525 membrane-bound complex binding site; other site 225937009526 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225937009527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937009528 active site 225937009529 phosphorylation site [posttranslational modification] 225937009530 intermolecular recognition site; other site 225937009531 dimerization interface [polypeptide binding]; other site 225937009532 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937009533 DNA binding residues [nucleotide binding] 225937009534 dimerization interface [polypeptide binding]; other site 225937009535 PAS fold; Region: PAS_7; pfam12860 225937009536 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 225937009537 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 225937009538 putative active site [active] 225937009539 heme pocket [chemical binding]; other site 225937009540 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937009541 dimer interface [polypeptide binding]; other site 225937009542 phosphorylation site [posttranslational modification] 225937009543 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 225937009544 ATP binding site [chemical binding]; other site 225937009545 Mg2+ binding site [ion binding]; other site 225937009546 G-X-G motif; other site 225937009547 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225937009548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937009549 active site 225937009550 phosphorylation site [posttranslational modification] 225937009551 intermolecular recognition site; other site 225937009552 dimerization interface [polypeptide binding]; other site 225937009553 FIST N domain; Region: FIST; pfam08495 225937009554 FIST C domain; Region: FIST_C; pfam10442 225937009555 Gram-negative porin; Region: Porin_4; pfam13609 225937009556 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 225937009557 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 225937009558 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 225937009559 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 225937009560 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 225937009561 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 225937009562 S-adenosylmethionine binding site [chemical binding]; other site 225937009563 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 225937009564 SCP-2 sterol transfer family; Region: SCP2; pfam02036 225937009565 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 225937009566 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 225937009567 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 225937009568 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 225937009569 metal binding site [ion binding]; metal-binding site 225937009570 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 225937009571 sec-independent translocase; Provisional; Region: tatB; PRK00404 225937009572 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 225937009573 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 225937009574 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 225937009575 RNA methyltransferase, RsmE family; Region: TIGR00046 225937009576 Protein of unknown function (DUF808); Region: DUF808; pfam05661 225937009577 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 225937009578 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 225937009579 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 225937009580 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 225937009581 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 225937009582 proline aminopeptidase P II; Provisional; Region: PRK10879 225937009583 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 225937009584 active site 225937009585 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 225937009586 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 225937009587 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 225937009588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937009589 Walker A/P-loop; other site 225937009590 ATP binding site [chemical binding]; other site 225937009591 ABC transporter; Region: ABC_tran; pfam00005 225937009592 Q-loop/lid; other site 225937009593 ABC transporter signature motif; other site 225937009594 Walker B; other site 225937009595 D-loop; other site 225937009596 H-loop/switch region; other site 225937009597 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225937009598 FtsX-like permease family; Region: FtsX; pfam02687 225937009599 TIGR02449 family protein; Region: TIGR02449 225937009600 Cell division protein ZapA; Region: ZapA; pfam05164 225937009601 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 225937009602 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 225937009603 threonine dehydratase; Reviewed; Region: PRK09224 225937009604 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 225937009605 tetramer interface [polypeptide binding]; other site 225937009606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937009607 catalytic residue [active] 225937009608 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 225937009609 putative Ile/Val binding site [chemical binding]; other site 225937009610 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 225937009611 putative Ile/Val binding site [chemical binding]; other site 225937009612 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 225937009613 tetramer (dimer of dimers) interface [polypeptide binding]; other site 225937009614 active site 225937009615 dimer interface [polypeptide binding]; other site 225937009616 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937009617 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937009618 active site 225937009619 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 225937009620 dimer interface [polypeptide binding]; other site 225937009621 substrate binding site [chemical binding]; other site 225937009622 metal binding sites [ion binding]; metal-binding site 225937009623 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 225937009624 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937009625 dimerization interface [polypeptide binding]; other site 225937009626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937009627 metal binding site [ion binding]; metal-binding site 225937009628 active site 225937009629 I-site; other site 225937009630 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 225937009631 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937009632 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 225937009633 active site 225937009634 phosphorylation site [posttranslational modification] 225937009635 intermolecular recognition site; other site 225937009636 dimerization interface [polypeptide binding]; other site 225937009637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937009638 active site 225937009639 phosphorylation site [posttranslational modification] 225937009640 intermolecular recognition site; other site 225937009641 dimerization interface [polypeptide binding]; other site 225937009642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937009643 metal binding site [ion binding]; metal-binding site 225937009644 active site 225937009645 I-site; other site 225937009646 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 225937009647 Dehydroquinase class II; Region: DHquinase_II; pfam01220 225937009648 active site 225937009649 trimer interface [polypeptide binding]; other site 225937009650 dimer interface [polypeptide binding]; other site 225937009651 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 225937009652 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 225937009653 carboxyltransferase (CT) interaction site; other site 225937009654 biotinylation site [posttranslational modification]; other site 225937009655 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 225937009656 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225937009657 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 225937009658 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 225937009659 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 225937009660 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 225937009661 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 225937009662 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 225937009663 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 225937009664 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 225937009665 FMN binding site [chemical binding]; other site 225937009666 active site 225937009667 catalytic residues [active] 225937009668 substrate binding site [chemical binding]; other site 225937009669 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 225937009670 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 225937009671 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 225937009672 purine monophosphate binding site [chemical binding]; other site 225937009673 dimer interface [polypeptide binding]; other site 225937009674 putative catalytic residues [active] 225937009675 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 225937009676 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 225937009677 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 225937009678 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 225937009679 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 225937009680 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225937009681 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225937009682 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 225937009683 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 225937009684 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 225937009685 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 225937009686 TrkA-N domain; Region: TrkA_N; pfam02254 225937009687 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 225937009688 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 225937009689 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 225937009690 transmembrane helices; other site 225937009691 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 225937009692 TrkA-C domain; Region: TrkA_C; pfam02080 225937009693 TrkA-C domain; Region: TrkA_C; pfam02080 225937009694 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; cl17221 225937009695 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 225937009696 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 225937009697 tetramer interface [polypeptide binding]; other site 225937009698 isocitrate lyase; Provisional; Region: PRK15063 225937009699 active site 225937009700 Mg2+/Mn2+ binding site [ion binding]; other site 225937009701 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 225937009702 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 225937009703 FOG: CBS domain [General function prediction only]; Region: COG0517 225937009704 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_17; cd04630 225937009705 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 225937009706 putative transporter; Provisional; Region: PRK11660 225937009707 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 225937009708 Sulfate transporter family; Region: Sulfate_transp; pfam00916 225937009709 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 225937009710 Protein of unknown function, DUF399; Region: DUF399; pfam04187 225937009711 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...; Region: Macro_Appr_pase_like; cd02908 225937009712 putative ADP-ribose binding site [chemical binding]; other site 225937009713 putative active site [active] 225937009714 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 225937009715 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 225937009716 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 225937009717 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 225937009718 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 225937009719 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 225937009720 DctM-like transporters; Region: DctM; pfam06808 225937009721 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 225937009722 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 225937009723 S-adenosylmethionine binding site [chemical binding]; other site 225937009724 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 225937009725 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937009726 Uncharacterized conserved protein [Function unknown]; Region: COG3391 225937009727 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 225937009728 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 225937009729 dimerization interface [polypeptide binding]; other site 225937009730 DPS ferroxidase diiron center [ion binding]; other site 225937009731 ion pore; other site 225937009732 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 225937009733 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937009734 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937009735 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225937009736 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 225937009737 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 225937009738 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 225937009739 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 225937009740 HSP70 interaction site [polypeptide binding]; other site 225937009741 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937009742 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225937009743 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937009744 multidrug efflux protein; Reviewed; Region: PRK09579 225937009745 Protein export membrane protein; Region: SecD_SecF; cl14618 225937009746 Helix-turn-helix domain; Region: HTH_18; pfam12833 225937009747 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 225937009748 PAS domain; Region: PAS_9; pfam13426 225937009749 putative active site [active] 225937009750 heme pocket [chemical binding]; other site 225937009751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937009752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937009753 metal binding site [ion binding]; metal-binding site 225937009754 active site 225937009755 I-site; other site 225937009756 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 225937009757 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 225937009758 PAS domain; Region: PAS_9; pfam13426 225937009759 putative active site [active] 225937009760 heme pocket [chemical binding]; other site 225937009761 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937009762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937009763 dimer interface [polypeptide binding]; other site 225937009764 putative CheW interface [polypeptide binding]; other site 225937009765 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 225937009766 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 225937009767 lipase chaperone; Provisional; Region: PRK01294 225937009768 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 225937009769 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937009770 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937009771 dimer interface [polypeptide binding]; other site 225937009772 phosphorylation site [posttranslational modification] 225937009773 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 225937009774 ATP binding site [chemical binding]; other site 225937009775 Mg2+ binding site [ion binding]; other site 225937009776 G-X-G motif; other site 225937009777 PBP superfamily domain; Region: PBP_like_2; cl17296 225937009778 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937009779 ligand binding site [chemical binding]; other site 225937009780 aspartate aminotransferase; Provisional; Region: PRK05764 225937009781 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 225937009782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937009783 homodimer interface [polypeptide binding]; other site 225937009784 catalytic residue [active] 225937009785 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 225937009786 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 225937009787 active site 225937009788 dimerization interface [polypeptide binding]; other site 225937009789 division inhibitor protein; Provisional; Region: slmA; PRK09480 225937009790 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937009791 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 225937009792 ThiS interaction site; other site 225937009793 putative active site [active] 225937009794 tetramer interface [polypeptide binding]; other site 225937009795 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 225937009796 thiS-thiF/thiG interaction site; other site 225937009797 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 225937009798 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 225937009799 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 225937009800 active site 225937009801 metal binding site [ion binding]; metal-binding site 225937009802 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 225937009803 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 225937009804 S-adenosylmethionine binding site [chemical binding]; other site 225937009805 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 225937009806 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 225937009807 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 225937009808 SurA N-terminal domain; Region: SurA_N; pfam09312 225937009809 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 225937009810 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 225937009811 OstA-like protein; Region: OstA; cl00844 225937009812 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 225937009813 Organic solvent tolerance protein; Region: OstA_C; pfam04453 225937009814 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 225937009815 Phosphotransferase enzyme family; Region: APH; pfam01636 225937009816 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 225937009817 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 225937009818 Substrate binding site; other site 225937009819 metal-binding site 225937009820 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 225937009821 putative metal binding site [ion binding]; other site 225937009822 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 225937009823 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 225937009824 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 225937009825 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 225937009826 substrate binding site [chemical binding]; other site 225937009827 hexamer interface [polypeptide binding]; other site 225937009828 metal binding site [ion binding]; metal-binding site 225937009829 phosphoglycolate phosphatase; Provisional; Region: PRK13222 225937009830 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 225937009831 active site 225937009832 motif I; other site 225937009833 motif II; other site 225937009834 anthranilate synthase component I; Provisional; Region: PRK13565 225937009835 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 225937009836 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 225937009837 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 225937009838 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 225937009839 glutamine binding [chemical binding]; other site 225937009840 catalytic triad [active] 225937009841 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 225937009842 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 225937009843 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 225937009844 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 225937009845 active site 225937009846 ribulose/triose binding site [chemical binding]; other site 225937009847 phosphate binding site [ion binding]; other site 225937009848 substrate (anthranilate) binding pocket [chemical binding]; other site 225937009849 product (indole) binding pocket [chemical binding]; other site 225937009850 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 225937009851 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225937009852 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 225937009853 putative C-terminal domain interface [polypeptide binding]; other site 225937009854 putative GSH binding site (G-site) [chemical binding]; other site 225937009855 putative dimer interface [polypeptide binding]; other site 225937009856 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 225937009857 N-terminal domain interface [polypeptide binding]; other site 225937009858 dimer interface [polypeptide binding]; other site 225937009859 substrate binding pocket (H-site) [chemical binding]; other site 225937009860 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225937009861 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 225937009862 putative active site [active] 225937009863 Zn binding site [ion binding]; other site 225937009864 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 225937009865 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 225937009866 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937009867 dimer interface [polypeptide binding]; other site 225937009868 conserved gate region; other site 225937009869 putative PBP binding loops; other site 225937009870 ABC-ATPase subunit interface; other site 225937009871 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937009872 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 225937009873 Walker A/P-loop; other site 225937009874 ATP binding site [chemical binding]; other site 225937009875 Q-loop/lid; other site 225937009876 ABC transporter signature motif; other site 225937009877 Walker B; other site 225937009878 D-loop; other site 225937009879 H-loop/switch region; other site 225937009880 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 225937009881 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 225937009882 substrate binding pocket [chemical binding]; other site 225937009883 membrane-bound complex binding site; other site 225937009884 hinge residues; other site 225937009885 lysozyme inhibitor; Provisional; Region: PRK11372 225937009886 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 225937009887 Predicted membrane protein [Function unknown]; Region: COG3650 225937009888 META domain; Region: META; pfam03724 225937009889 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225937009890 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 225937009891 C-terminal domain interface [polypeptide binding]; other site 225937009892 GSH binding site (G-site) [chemical binding]; other site 225937009893 dimer interface [polypeptide binding]; other site 225937009894 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 225937009895 N-terminal domain interface [polypeptide binding]; other site 225937009896 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 225937009897 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 225937009898 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 225937009899 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225937009900 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 225937009901 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 225937009902 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 225937009903 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937009904 dimer interface [polypeptide binding]; other site 225937009905 conserved gate region; other site 225937009906 putative PBP binding loops; other site 225937009907 ABC-ATPase subunit interface; other site 225937009908 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 225937009909 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937009910 Walker A/P-loop; other site 225937009911 ATP binding site [chemical binding]; other site 225937009912 Q-loop/lid; other site 225937009913 ABC transporter signature motif; other site 225937009914 Walker B; other site 225937009915 D-loop; other site 225937009916 H-loop/switch region; other site 225937009917 TOBE domain; Region: TOBE; pfam03459 225937009918 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 225937009919 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 225937009920 ligand binding site [chemical binding]; other site 225937009921 flexible hinge region; other site 225937009922 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 225937009923 putative switch regulator; other site 225937009924 non-specific DNA interactions [nucleotide binding]; other site 225937009925 DNA binding site [nucleotide binding] 225937009926 sequence specific DNA binding site [nucleotide binding]; other site 225937009927 putative cAMP binding site [chemical binding]; other site 225937009928 OsmC-like protein; Region: OsmC; cl00767 225937009929 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 225937009930 Pirin-related protein [General function prediction only]; Region: COG1741 225937009931 Pirin; Region: Pirin; pfam02678 225937009932 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 225937009933 phosphoribulokinase; Provisional; Region: PRK15453 225937009934 active site 225937009935 PilZ domain; Region: PilZ; pfam07238 225937009936 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 225937009937 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937009938 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937009939 metal binding site [ion binding]; metal-binding site 225937009940 active site 225937009941 I-site; other site 225937009942 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 225937009943 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 225937009944 N-acetylglutamate synthase; Validated; Region: PRK05279 225937009945 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 225937009946 putative feedback inhibition sensing region; other site 225937009947 putative nucleotide binding site [chemical binding]; other site 225937009948 putative substrate binding site [chemical binding]; other site 225937009949 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937009950 Coenzyme A binding pocket [chemical binding]; other site 225937009951 acetylornithine deacetylase; Provisional; Region: PRK05111 225937009952 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 225937009953 metal binding site [ion binding]; metal-binding site 225937009954 putative dimer interface [polypeptide binding]; other site 225937009955 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 225937009956 feedback inhibition sensing region; other site 225937009957 homohexameric interface [polypeptide binding]; other site 225937009958 nucleotide binding site [chemical binding]; other site 225937009959 N-acetyl-L-glutamate binding site [chemical binding]; other site 225937009960 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 225937009961 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 225937009962 active site 225937009963 substrate binding site [chemical binding]; other site 225937009964 metal binding site [ion binding]; metal-binding site 225937009965 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 225937009966 trimer interface [polypeptide binding]; other site 225937009967 active site 225937009968 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 225937009969 Flavoprotein; Region: Flavoprotein; pfam02441 225937009970 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 225937009971 hypothetical protein; Reviewed; Region: PRK00024 225937009972 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 225937009973 MPN+ (JAMM) motif; other site 225937009974 Zinc-binding site [ion binding]; other site 225937009975 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 225937009976 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 225937009977 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 225937009978 putative catalytic site [active] 225937009979 putative metal binding site [ion binding]; other site 225937009980 putative phosphate binding site [ion binding]; other site 225937009981 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 225937009982 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 225937009983 catalytic residues [active] 225937009984 hinge region; other site 225937009985 alpha helical domain; other site 225937009986 Cytochrome c553 [Energy production and conversion]; Region: COG2863 225937009987 Cytochrome c; Region: Cytochrom_C; cl11414 225937009988 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 225937009989 G1 box; other site 225937009990 GTP/Mg2+ binding site [chemical binding]; other site 225937009991 Switch I region; other site 225937009992 G2 box; other site 225937009993 G3 box; other site 225937009994 Switch II region; other site 225937009995 G4 box; other site 225937009996 G5 box; other site 225937009997 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937009998 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937009999 Bacterial transcriptional repressor; Region: TetR; pfam13972 225937010000 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 225937010001 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 225937010002 NAD(P) binding site [chemical binding]; other site 225937010003 catalytic residues [active] 225937010004 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 225937010005 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 225937010006 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 225937010007 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 225937010008 active site 225937010009 (T/H)XGH motif; other site 225937010010 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 225937010011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 225937010012 polyphosphate kinase; Provisional; Region: PRK05443 225937010013 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 225937010014 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 225937010015 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 225937010016 putative active site [active] 225937010017 catalytic site [active] 225937010018 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 225937010019 putative domain interface [polypeptide binding]; other site 225937010020 putative active site [active] 225937010021 catalytic site [active] 225937010022 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 225937010023 dimer interface [polypeptide binding]; other site 225937010024 allosteric magnesium binding site [ion binding]; other site 225937010025 active site 225937010026 aspartate-rich active site metal binding site; other site 225937010027 Schiff base residues; other site 225937010028 lipase chaperone; Provisional; Region: PRK01294 225937010029 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 225937010030 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937010031 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937010032 Archaeal/eukaryotic core primase: Large subunit, PriL; Region: PriL; cl11970 225937010033 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 225937010034 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937010035 active site 225937010036 Protein of unknown function (DUF503); Region: DUF503; pfam04456 225937010037 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 225937010038 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225937010039 catalytic residue [active] 225937010040 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 225937010041 Phosphate transporter family; Region: PHO4; pfam01384 225937010042 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937010043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010044 metal binding site [ion binding]; metal-binding site 225937010045 active site 225937010046 I-site; other site 225937010047 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 225937010048 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 225937010049 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 225937010050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010051 metal binding site [ion binding]; metal-binding site 225937010052 active site 225937010053 I-site; other site 225937010054 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 225937010055 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 225937010056 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 225937010057 active site 225937010058 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 225937010059 catalytic triad [active] 225937010060 dimer interface [polypeptide binding]; other site 225937010061 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 225937010062 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 225937010063 intermolecular recognition site; other site 225937010064 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937010065 hypothetical protein; Provisional; Region: PRK07236 225937010066 Rubredoxin [Energy production and conversion]; Region: COG1773 225937010067 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 225937010068 iron binding site [ion binding]; other site 225937010069 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225937010070 active site 225937010071 Chorismate lyase; Region: Chor_lyase; cl01230 225937010072 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 225937010073 UbiA prenyltransferase family; Region: UbiA; pfam01040 225937010074 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 225937010075 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010076 active site 225937010077 phosphorylation site [posttranslational modification] 225937010078 intermolecular recognition site; other site 225937010079 dimerization interface [polypeptide binding]; other site 225937010080 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937010081 DNA binding site [nucleotide binding] 225937010082 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 225937010083 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 225937010084 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 225937010085 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937010086 dimer interface [polypeptide binding]; other site 225937010087 phosphorylation site [posttranslational modification] 225937010088 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 225937010089 ATP binding site [chemical binding]; other site 225937010090 Mg2+ binding site [ion binding]; other site 225937010091 G-X-G motif; other site 225937010092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010093 Response regulator receiver domain; Region: Response_reg; pfam00072 225937010094 active site 225937010095 phosphorylation site [posttranslational modification] 225937010096 intermolecular recognition site; other site 225937010097 dimerization interface [polypeptide binding]; other site 225937010098 Transglycosylase SLT domain; Region: SLT_2; pfam13406 225937010099 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...; Region: LT_GEWL; cd00254 225937010100 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225937010101 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 225937010102 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 225937010103 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 225937010104 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 225937010105 RNA binding surface [nucleotide binding]; other site 225937010106 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 225937010107 active site 225937010108 uracil binding [chemical binding]; other site 225937010109 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 225937010110 active site 225937010111 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 225937010112 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 225937010113 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 225937010114 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 225937010115 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010116 metal binding site [ion binding]; metal-binding site 225937010117 active site 225937010118 I-site; other site 225937010119 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 225937010120 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 225937010121 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 225937010122 XFP N-terminal domain; Region: XFP_N; pfam09364 225937010123 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 225937010124 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 225937010125 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 225937010126 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 225937010127 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 225937010128 Soluble P-type ATPase [General function prediction only]; Region: COG4087 225937010129 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 225937010130 PhoD-like phosphatase; Region: PhoD; pfam09423 225937010131 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 225937010132 putative active site [active] 225937010133 putative metal binding site [ion binding]; other site 225937010134 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225937010135 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 225937010136 putative glutathione S-transferase; Provisional; Region: PRK10357 225937010137 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225937010138 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 225937010139 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 225937010140 hexamer interface [polypeptide binding]; other site 225937010141 ligand binding site [chemical binding]; other site 225937010142 putative active site [active] 225937010143 NAD(P) binding site [chemical binding]; other site 225937010144 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 225937010145 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225937010146 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225937010147 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 225937010148 putative acyl-acceptor binding pocket; other site 225937010149 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...; Region: CSP_CDS; cd04458 225937010150 DNA-binding site [nucleotide binding]; DNA binding site 225937010151 RNA-binding motif; other site 225937010152 chromosome condensation membrane protein; Provisional; Region: PRK14196 225937010153 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 225937010154 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937010155 active site 225937010156 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 225937010157 ATP-dependent helicase HepA; Validated; Region: PRK04914 225937010158 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 225937010159 ATP binding site [chemical binding]; other site 225937010160 putative Mg++ binding site [ion binding]; other site 225937010161 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 225937010162 nucleotide binding region [chemical binding]; other site 225937010163 ATP-binding site [chemical binding]; other site 225937010164 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 225937010165 VanZ like family; Region: VanZ; cl01971 225937010166 Predicted methyltransferase [General function prediction only]; Region: COG3897 225937010167 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 225937010168 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 225937010169 active site residue [active] 225937010170 mechanosensitive channel MscS; Provisional; Region: PRK10334 225937010171 Conserved TM helix; Region: TM_helix; pfam05552 225937010172 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225937010173 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 225937010174 putative deacylase active site [active] 225937010175 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 225937010176 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 225937010177 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 225937010178 nucleotide binding site/active site [active] 225937010179 HIT family signature motif; other site 225937010180 catalytic residue [active] 225937010181 transcriptional regulator PhoU; Provisional; Region: PRK11115 225937010182 PhoU domain; Region: PhoU; pfam01895 225937010183 PhoU domain; Region: PhoU; pfam01895 225937010184 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 225937010185 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 225937010186 Walker A/P-loop; other site 225937010187 ATP binding site [chemical binding]; other site 225937010188 Q-loop/lid; other site 225937010189 ABC transporter signature motif; other site 225937010190 Walker B; other site 225937010191 D-loop; other site 225937010192 H-loop/switch region; other site 225937010193 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 225937010194 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 225937010195 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937010196 dimer interface [polypeptide binding]; other site 225937010197 conserved gate region; other site 225937010198 putative PBP binding loops; other site 225937010199 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 225937010200 ABC-ATPase subunit interface; other site 225937010201 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 225937010202 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 225937010203 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937010204 dimer interface [polypeptide binding]; other site 225937010205 conserved gate region; other site 225937010206 putative PBP binding loops; other site 225937010207 ABC-ATPase subunit interface; other site 225937010208 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 225937010209 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 225937010210 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 225937010211 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; cl17186 225937010212 phosphate binding site [ion binding]; other site 225937010213 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 225937010214 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 225937010215 dimer interface [polypeptide binding]; other site 225937010216 PYR/PP interface [polypeptide binding]; other site 225937010217 TPP binding site [chemical binding]; other site 225937010218 substrate binding site [chemical binding]; other site 225937010219 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 225937010220 Domain of unknown function; Region: EKR; pfam10371 225937010221 4Fe-4S binding domain; Region: Fer4; pfam00037 225937010222 4Fe-4S binding domain; Region: Fer4; pfam00037 225937010223 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 225937010224 TPP-binding site [chemical binding]; other site 225937010225 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 225937010226 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937010227 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; cd01635 225937010228 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 225937010229 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225937010230 putative substrate translocation pore; other site 225937010231 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 225937010232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937010233 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 225937010234 Walker A/P-loop; other site 225937010235 ATP binding site [chemical binding]; other site 225937010236 Q-loop/lid; other site 225937010237 ABC transporter signature motif; other site 225937010238 Walker B; other site 225937010239 D-loop; other site 225937010240 H-loop/switch region; other site 225937010241 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 225937010242 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 225937010243 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 225937010244 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 225937010245 Low molecular weight phosphatase family; Region: LMWPc; cd00115 225937010246 active site 225937010247 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 225937010248 putative DNA binding site [nucleotide binding]; other site 225937010249 putative Zn2+ binding site [ion binding]; other site 225937010250 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 225937010251 arsenical-resistance protein; Region: acr3; TIGR00832 225937010252 Bacitracin resistance protein BacA; Region: BacA; pfam02673 225937010253 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 225937010254 Part of AAA domain; Region: AAA_19; pfam13245 225937010255 Family description; Region: UvrD_C_2; pfam13538 225937010256 succinic semialdehyde dehydrogenase; Region: PLN02278 225937010257 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 225937010258 tetramerization interface [polypeptide binding]; other site 225937010259 NAD(P) binding site [chemical binding]; other site 225937010260 catalytic residues [active] 225937010261 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 225937010262 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 225937010263 active site 225937010264 Zn binding site [ion binding]; other site 225937010265 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 225937010266 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 225937010267 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 225937010268 Ligand Binding Site [chemical binding]; other site 225937010269 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 225937010270 active site residue [active] 225937010271 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 225937010272 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 225937010273 Cytochrome c; Region: Cytochrom_C; cl11414 225937010274 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 225937010275 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 225937010276 substrate binding site [chemical binding]; other site 225937010277 oxyanion hole (OAH) forming residues; other site 225937010278 trimer interface [polypeptide binding]; other site 225937010279 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 225937010280 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 225937010281 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 225937010282 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 225937010283 Helicase; Region: Helicase_RecD; pfam05127 225937010284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937010285 Coenzyme A binding pocket [chemical binding]; other site 225937010286 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 225937010287 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 225937010288 Part of AAA domain; Region: AAA_19; pfam13245 225937010289 Family description; Region: UvrD_C_2; pfam13538 225937010290 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225937010291 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225937010292 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937010293 ligand binding site [chemical binding]; other site 225937010294 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 225937010295 S-adenosylmethionine binding site [chemical binding]; other site 225937010296 putative RNA methyltransferase; Provisional; Region: PRK10433 225937010297 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 225937010298 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 225937010299 hydroxyglutarate oxidase; Provisional; Region: PRK11728 225937010300 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 225937010301 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 225937010302 active site 225937010303 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 225937010304 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 225937010305 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937010306 Zn2+ binding site [ion binding]; other site 225937010307 Mg2+ binding site [ion binding]; other site 225937010308 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 225937010309 PAS domain; Region: PAS_9; pfam13426 225937010310 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 225937010311 putative active site [active] 225937010312 heme pocket [chemical binding]; other site 225937010313 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 225937010314 PAS domain; Region: PAS_9; pfam13426 225937010315 putative active site [active] 225937010316 heme pocket [chemical binding]; other site 225937010317 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937010318 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010319 metal binding site [ion binding]; metal-binding site 225937010320 active site 225937010321 I-site; other site 225937010322 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 225937010323 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 225937010324 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 225937010325 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 225937010326 Response regulator receiver domain; Region: Response_reg; pfam00072 225937010327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010328 active site 225937010329 phosphorylation site [posttranslational modification] 225937010330 intermolecular recognition site; other site 225937010331 dimerization interface [polypeptide binding]; other site 225937010332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010333 Response regulator receiver domain; Region: Response_reg; pfam00072 225937010334 active site 225937010335 phosphorylation site [posttranslational modification] 225937010336 intermolecular recognition site; other site 225937010337 dimerization interface [polypeptide binding]; other site 225937010338 HDOD domain; Region: HDOD; pfam08668 225937010339 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 225937010340 putative binding surface; other site 225937010341 active site 225937010342 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225937010343 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 225937010344 active site 225937010345 phosphorylation site [posttranslational modification] 225937010346 dimerization interface [polypeptide binding]; other site 225937010347 Response regulator receiver domain; Region: Response_reg; pfam00072 225937010348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010349 active site 225937010350 phosphorylation site [posttranslational modification] 225937010351 intermolecular recognition site; other site 225937010352 dimerization interface [polypeptide binding]; other site 225937010353 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937010354 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010355 metal binding site [ion binding]; metal-binding site 225937010356 active site 225937010357 I-site; other site 225937010358 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937010359 HAMP domain; Region: HAMP; pfam00672 225937010360 dimerization interface [polypeptide binding]; other site 225937010361 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937010362 dimer interface [polypeptide binding]; other site 225937010363 phosphorylation site [posttranslational modification] 225937010364 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 225937010365 ATP binding site [chemical binding]; other site 225937010366 Mg2+ binding site [ion binding]; other site 225937010367 G-X-G motif; other site 225937010368 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225937010369 GAF domain; Region: GAF; pfam01590 225937010370 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225937010371 GAF domain; Region: GAF; pfam01590 225937010372 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 225937010373 putative active site [active] 225937010374 heme pocket [chemical binding]; other site 225937010375 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937010376 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937010377 dimer interface [polypeptide binding]; other site 225937010378 phosphorylation site [posttranslational modification] 225937010379 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 225937010380 ATP binding site [chemical binding]; other site 225937010381 Mg2+ binding site [ion binding]; other site 225937010382 G-X-G motif; other site 225937010383 Ferritin-like domain; Region: Ferritin; pfam00210 225937010384 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 225937010385 dinuclear metal binding motif [ion binding]; other site 225937010386 aconitate hydratase; Validated; Region: PRK09277 225937010387 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 225937010388 substrate binding site [chemical binding]; other site 225937010389 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 225937010390 ligand binding site [chemical binding]; other site 225937010391 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 225937010392 substrate binding site [chemical binding]; other site 225937010393 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 225937010394 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937010395 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937010396 dimer interface [polypeptide binding]; other site 225937010397 putative CheW interface [polypeptide binding]; other site 225937010398 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 225937010399 Cu(I) binding site [ion binding]; other site 225937010400 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225937010401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937010402 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 225937010403 Walker A/P-loop; other site 225937010404 ATP binding site [chemical binding]; other site 225937010405 Q-loop/lid; other site 225937010406 ABC transporter signature motif; other site 225937010407 Walker B; other site 225937010408 D-loop; other site 225937010409 H-loop/switch region; other site 225937010410 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 225937010411 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225937010412 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937010413 ligand binding site [chemical binding]; other site 225937010414 MAPEG family; Region: MAPEG; cl09190 225937010415 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 225937010416 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 225937010417 putative acyl-acceptor binding pocket; other site 225937010418 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 225937010419 active site 225937010420 catalytic site [active] 225937010421 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 225937010422 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 225937010423 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 225937010424 metal ion-dependent adhesion site (MIDAS); other site 225937010425 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 225937010426 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010427 active site 225937010428 phosphorylation site [posttranslational modification] 225937010429 intermolecular recognition site; other site 225937010430 dimerization interface [polypeptide binding]; other site 225937010431 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937010432 DNA binding site [nucleotide binding] 225937010433 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 225937010434 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 225937010435 putative ligand binding site [chemical binding]; other site 225937010436 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 225937010437 dimerization interface [polypeptide binding]; other site 225937010438 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937010439 dimer interface [polypeptide binding]; other site 225937010440 phosphorylation site [posttranslational modification] 225937010441 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 225937010442 ATP binding site [chemical binding]; other site 225937010443 Mg2+ binding site [ion binding]; other site 225937010444 G-X-G motif; other site 225937010445 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 225937010446 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 225937010447 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937010448 Walker A motif; other site 225937010449 ATP binding site [chemical binding]; other site 225937010450 Walker B motif; other site 225937010451 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 225937010452 active site 225937010453 dimer interfaces [polypeptide binding]; other site 225937010454 catalytic residues [active] 225937010455 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937010456 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937010457 substrate binding pocket [chemical binding]; other site 225937010458 membrane-bound complex binding site; other site 225937010459 hinge residues; other site 225937010460 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937010461 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937010462 substrate binding pocket [chemical binding]; other site 225937010463 membrane-bound complex binding site; other site 225937010464 hinge residues; other site 225937010465 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 225937010466 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937010467 substrate binding pocket [chemical binding]; other site 225937010468 membrane-bound complex binding site; other site 225937010469 hinge residues; other site 225937010470 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937010471 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010472 metal binding site [ion binding]; metal-binding site 225937010473 active site 225937010474 I-site; other site 225937010475 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 225937010476 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 225937010477 dimer interface [polypeptide binding]; other site 225937010478 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937010479 catalytic residue [active] 225937010480 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 225937010481 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 225937010482 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 225937010483 putative active site [active] 225937010484 catalytic site [active] 225937010485 putative metal binding site [ion binding]; other site 225937010486 Protein of unknown function (DUF465); Region: DUF465; cl01070 225937010487 DNA ligase; Provisional; Region: PRK09125 225937010488 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 225937010489 DNA binding site [nucleotide binding] 225937010490 active site 225937010491 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 225937010492 DNA binding site [nucleotide binding] 225937010493 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225937010494 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 225937010495 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 225937010496 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 225937010497 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 225937010498 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 225937010499 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 225937010500 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 225937010501 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 225937010502 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 225937010503 Protein of unknown function (DUF3121); Region: DUF3121; pfam11319 225937010504 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 225937010505 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937010506 Walker A motif; other site 225937010507 ATP binding site [chemical binding]; other site 225937010508 Walker B motif; other site 225937010509 arginine finger; other site 225937010510 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 225937010511 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 225937010512 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937010513 Walker A motif; other site 225937010514 ATP binding site [chemical binding]; other site 225937010515 Walker B motif; other site 225937010516 arginine finger; other site 225937010517 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937010518 Walker A motif; other site 225937010519 ATP binding site [chemical binding]; other site 225937010520 Walker B motif; other site 225937010521 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 225937010522 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 225937010523 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 225937010524 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 225937010525 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 225937010526 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 225937010527 FHA domain; Region: FHA; pfam00498 225937010528 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 225937010529 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 225937010530 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 225937010531 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 225937010532 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 225937010533 Protein of unknown function (DUF877); Region: DUF877; pfam05943 225937010534 Protein of unknown function (DUF770); Region: DUF770; pfam05591 225937010535 Acyl CoA binding protein; Region: ACBP; pfam00887 225937010536 acyl-CoA binding pocket [chemical binding]; other site 225937010537 CoA binding site [chemical binding]; other site 225937010538 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 225937010539 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 225937010540 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 225937010541 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 225937010542 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937010543 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937010544 dimerization interface [polypeptide binding]; other site 225937010545 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937010546 dimer interface [polypeptide binding]; other site 225937010547 phosphorylation site [posttranslational modification] 225937010548 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 225937010549 ATP binding site [chemical binding]; other site 225937010550 Mg2+ binding site [ion binding]; other site 225937010551 G-X-G motif; other site 225937010552 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225937010553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010554 active site 225937010555 phosphorylation site [posttranslational modification] 225937010556 intermolecular recognition site; other site 225937010557 dimerization interface [polypeptide binding]; other site 225937010558 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937010559 DNA binding site [nucleotide binding] 225937010560 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 225937010561 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 225937010562 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 225937010563 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 225937010564 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937010565 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937010566 DNA binding residues [nucleotide binding] 225937010567 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 225937010568 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 225937010569 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 225937010570 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937010571 Walker A/P-loop; other site 225937010572 ATP binding site [chemical binding]; other site 225937010573 Q-loop/lid; other site 225937010574 ABC transporter signature motif; other site 225937010575 Walker B; other site 225937010576 D-loop; other site 225937010577 H-loop/switch region; other site 225937010578 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 225937010579 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 225937010580 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 225937010581 P loop; other site 225937010582 GTP binding site [chemical binding]; other site 225937010583 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 225937010584 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 225937010585 S-adenosylmethionine binding site [chemical binding]; other site 225937010586 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 225937010587 Fatty acid desaturase; Region: FA_desaturase; pfam00487 225937010588 Di-iron ligands [ion binding]; other site 225937010589 Transposase; Region: DDE_Tnp_ISL3; pfam01610 225937010590 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 225937010591 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 225937010592 DNA binding site [nucleotide binding] 225937010593 putative catalytic residues [active] 225937010594 turnover-facilitating residue; other site 225937010595 intercalation triad [nucleotide binding]; other site 225937010596 8OG recognition residue [nucleotide binding]; other site 225937010597 putative reading head residues; other site 225937010598 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 225937010599 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 225937010600 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 225937010601 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 225937010602 motif II; other site 225937010603 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 225937010604 RNA binding surface [nucleotide binding]; other site 225937010605 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 225937010606 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 225937010607 dimerization interface [polypeptide binding]; other site 225937010608 domain crossover interface; other site 225937010609 redox-dependent activation switch; other site 225937010610 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_ATP; cd00484 225937010611 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 225937010612 active site 225937010613 substrate-binding site [chemical binding]; other site 225937010614 metal-binding site [ion binding] 225937010615 ATP binding site [chemical binding]; other site 225937010616 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 225937010617 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 225937010618 IHF - DNA interface [nucleotide binding]; other site 225937010619 IHF dimer interface [polypeptide binding]; other site 225937010620 dihydroorotase; Validated; Region: pyrC; PRK09357 225937010621 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 225937010622 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 225937010623 active site 225937010624 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 225937010625 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 225937010626 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 225937010627 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225937010628 active site 225937010629 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 225937010630 hypothetical protein; Validated; Region: PRK00228 225937010631 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 225937010632 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225937010633 glutathione synthetase; Provisional; Region: PRK05246 225937010634 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 225937010635 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 225937010636 Response regulator receiver domain; Region: Response_reg; pfam00072 225937010637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010638 active site 225937010639 phosphorylation site [posttranslational modification] 225937010640 intermolecular recognition site; other site 225937010641 dimerization interface [polypeptide binding]; other site 225937010642 Response regulator receiver domain; Region: Response_reg; pfam00072 225937010643 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010644 active site 225937010645 phosphorylation site [posttranslational modification] 225937010646 intermolecular recognition site; other site 225937010647 dimerization interface [polypeptide binding]; other site 225937010648 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 225937010649 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 225937010650 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937010651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937010652 dimer interface [polypeptide binding]; other site 225937010653 putative CheW interface [polypeptide binding]; other site 225937010654 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 225937010655 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 225937010656 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 225937010657 S-adenosylmethionine binding site [chemical binding]; other site 225937010658 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 225937010659 putative binding surface; other site 225937010660 active site 225937010661 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 225937010662 putative binding surface; other site 225937010663 active site 225937010664 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 225937010665 putative binding surface; other site 225937010666 active site 225937010667 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 225937010668 putative binding surface; other site 225937010669 active site 225937010670 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 225937010671 putative binding surface; other site 225937010672 active site 225937010673 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 225937010674 putative binding surface; other site 225937010675 active site 225937010676 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 225937010677 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 225937010678 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 225937010679 ATP binding site [chemical binding]; other site 225937010680 Mg2+ binding site [ion binding]; other site 225937010681 G-X-G motif; other site 225937010682 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 225937010683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937010684 Response regulator receiver domain; Region: Response_reg; pfam00072 225937010685 active site 225937010686 phosphorylation site [posttranslational modification] 225937010687 intermolecular recognition site; other site 225937010688 dimerization interface [polypeptide binding]; other site 225937010689 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 225937010690 CheB methylesterase; Region: CheB_methylest; pfam01339 225937010691 CheW-like domain; Region: CheW; pfam01584 225937010692 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 225937010693 metal binding site 2 [ion binding]; metal-binding site 225937010694 putative DNA binding helix; other site 225937010695 metal binding site 1 [ion binding]; metal-binding site 225937010696 dimer interface [polypeptide binding]; other site 225937010697 structural Zn2+ binding site [ion binding]; other site 225937010698 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 225937010699 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 225937010700 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 225937010701 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 225937010702 ABC-ATPase subunit interface; other site 225937010703 dimer interface [polypeptide binding]; other site 225937010704 putative PBP binding regions; other site 225937010705 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 225937010706 PAS domain; Region: PAS_9; pfam13426 225937010707 putative active site [active] 225937010708 heme pocket [chemical binding]; other site 225937010709 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 225937010710 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 225937010711 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937010712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010713 metal binding site [ion binding]; metal-binding site 225937010714 active site 225937010715 I-site; other site 225937010716 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225937010717 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 225937010718 homodecamer interface [polypeptide binding]; other site 225937010719 GTP cyclohydrolase I; Provisional; Region: PLN03044 225937010720 active site 225937010721 putative catalytic site residues [active] 225937010722 zinc binding site [ion binding]; other site 225937010723 GTP-CH-I/GFRP interaction surface; other site 225937010724 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 225937010725 active site 225937010726 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 225937010727 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 225937010728 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 225937010729 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937010730 Zn2+ binding site [ion binding]; other site 225937010731 Mg2+ binding site [ion binding]; other site 225937010732 CHASE domain; Region: CHASE; cl01369 225937010733 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937010734 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010735 metal binding site [ion binding]; metal-binding site 225937010736 active site 225937010737 I-site; other site 225937010738 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 225937010739 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 225937010740 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 225937010741 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937010742 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 225937010743 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 225937010744 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937010745 dimerization interface [polypeptide binding]; other site 225937010746 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937010747 dimer interface [polypeptide binding]; other site 225937010748 putative CheW interface [polypeptide binding]; other site 225937010749 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 225937010750 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 225937010751 Na binding site [ion binding]; other site 225937010752 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 225937010753 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 225937010754 active site 225937010755 catalytic site [active] 225937010756 Zn binding site [ion binding]; other site 225937010757 tetramer interface [polypeptide binding]; other site 225937010758 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 225937010759 hypothetical protein; Provisional; Region: PRK06102 225937010760 Amidase; Region: Amidase; cl11426 225937010761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937010762 DNA-binding site [nucleotide binding]; DNA binding site 225937010763 Transcriptional regulators [Transcription]; Region: GntR; COG1802 225937010764 FCD domain; Region: FCD; pfam07729 225937010765 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 225937010766 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 225937010767 DNA binding residues [nucleotide binding] 225937010768 dimer interface [polypeptide binding]; other site 225937010769 copper exporting ATPase; Provisional; Region: copA; PRK10671 225937010770 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 225937010771 metal-binding site [ion binding] 225937010772 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 225937010773 metal-binding site [ion binding] 225937010774 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 225937010775 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 225937010776 motif II; other site 225937010777 Predicted metal-binding protein [General function prediction only]; Region: COG3019 225937010778 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937010779 dimerization interface [polypeptide binding]; other site 225937010780 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937010781 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010782 metal binding site [ion binding]; metal-binding site 225937010783 active site 225937010784 I-site; other site 225937010785 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 225937010786 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 225937010787 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 225937010788 RNA binding site [nucleotide binding]; other site 225937010789 RNB domain; Region: RNB; pfam00773 225937010790 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...; Region: S1_RNase_R; cd04471 225937010791 RNA binding site [nucleotide binding]; other site 225937010792 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 225937010793 Udp N-acetylglucosamine O-acyltransferase; Domain 2; Region: Acetyltransf_11; pfam13720 225937010794 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 225937010795 putative dimer interface [polypeptide binding]; other site 225937010796 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225937010797 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 225937010798 putative acyl-acceptor binding pocket; other site 225937010799 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 225937010800 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 225937010801 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 225937010802 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 225937010803 motif II; other site 225937010804 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225937010805 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937010806 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 225937010807 dimerization interface [polypeptide binding]; other site 225937010808 putative DNA binding site [nucleotide binding]; other site 225937010809 putative Zn2+ binding site [ion binding]; other site 225937010810 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 225937010811 substrate binding pocket [chemical binding]; other site 225937010812 dimerization interface [polypeptide binding]; other site 225937010813 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 225937010814 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937010815 putative substrate translocation pore; other site 225937010816 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 225937010817 dimer interface [polypeptide binding]; other site 225937010818 catalytic triad [active] 225937010819 peroxidatic and resolving cysteines [active] 225937010820 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 225937010821 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 225937010822 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 225937010823 active site 225937010824 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 225937010825 nudix motif; other site 225937010826 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225937010827 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 225937010828 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 225937010829 putative active site [active] 225937010830 Zn binding site [ion binding]; other site 225937010831 EamA-like transporter family; Region: EamA; pfam00892 225937010832 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 225937010833 EamA-like transporter family; Region: EamA; pfam00892 225937010834 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 225937010835 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 225937010836 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 225937010837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937010838 homodimer interface [polypeptide binding]; other site 225937010839 catalytic residue [active] 225937010840 Predicted permeases [General function prediction only]; Region: COG0679 225937010841 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 225937010842 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 225937010843 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937010844 dimer interface [polypeptide binding]; other site 225937010845 putative CheW interface [polypeptide binding]; other site 225937010846 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 225937010847 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937010848 active site 225937010849 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 225937010850 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 225937010851 homodimer interaction site [polypeptide binding]; other site 225937010852 cofactor binding site; other site 225937010853 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 225937010854 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 225937010855 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 225937010856 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 225937010857 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 225937010858 putative metal binding site [ion binding]; other site 225937010859 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 225937010860 ABC-ATPase subunit interface; other site 225937010861 dimer interface [polypeptide binding]; other site 225937010862 putative PBP binding regions; other site 225937010863 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 225937010864 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 225937010865 Walker A/P-loop; other site 225937010866 ATP binding site [chemical binding]; other site 225937010867 Q-loop/lid; other site 225937010868 ABC transporter signature motif; other site 225937010869 Walker B; other site 225937010870 D-loop; other site 225937010871 H-loop/switch region; other site 225937010872 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 225937010873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937010874 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 225937010875 dimerization interface [polypeptide binding]; other site 225937010876 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 225937010877 EamA-like transporter family; Region: EamA; pfam00892 225937010878 putative metal dependent hydrolase; Provisional; Region: PRK11598 225937010879 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 225937010880 Sulfatase; Region: Sulfatase; pfam00884 225937010881 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 225937010882 putative active site pocket [active] 225937010883 dimerization interface [polypeptide binding]; other site 225937010884 putative catalytic residue [active] 225937010885 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 225937010886 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 225937010887 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 225937010888 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 225937010889 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 225937010890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 225937010891 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 225937010892 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 225937010893 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 225937010894 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 225937010895 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 225937010896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 225937010897 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 225937010898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 225937010899 Uncharacterized conserved protein [Function unknown]; Region: COG2308 225937010900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 225937010901 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 225937010902 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 225937010903 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 225937010904 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937010905 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937010906 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 225937010907 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 225937010908 ligand binding site [chemical binding]; other site 225937010909 homodimer interface [polypeptide binding]; other site 225937010910 NAD(P) binding site [chemical binding]; other site 225937010911 trimer interface B [polypeptide binding]; other site 225937010912 trimer interface A [polypeptide binding]; other site 225937010913 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 225937010914 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 225937010915 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 225937010916 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225937010917 Old yellow enzyme (OYE)-related FMN binding domain, group 5. 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_5_FMN; cd04747 225937010918 putative active site [active] 225937010919 putative FMN binding site [chemical binding]; other site 225937010920 putative substrate binding site [chemical binding]; other site 225937010921 putative catalytic residue [active] 225937010922 Predicted transcriptional regulators [Transcription]; Region: COG1733 225937010923 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 225937010924 OmpW family; Region: OmpW; cl17427 225937010925 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 225937010926 CAAX protease self-immunity; Region: Abi; pfam02517 225937010927 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 225937010928 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 225937010929 ATP binding site [chemical binding]; other site 225937010930 Mg++ binding site [ion binding]; other site 225937010931 motif III; other site 225937010932 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 225937010933 nucleotide binding region [chemical binding]; other site 225937010934 ATP-binding site [chemical binding]; other site 225937010935 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 225937010936 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 225937010937 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225937010938 catalytic residues [active] 225937010939 Domain of unknown function DUF302; Region: DUF302; pfam03625 225937010940 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 225937010941 putative acyl-acceptor binding pocket; other site 225937010942 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 225937010943 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...; Region: LT_GEWL; cd00254 225937010944 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225937010945 catalytic residue [active] 225937010946 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 225937010947 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 225937010948 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 225937010949 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 225937010950 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 225937010951 active site 225937010952 Zn binding site [ion binding]; other site 225937010953 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 225937010954 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 225937010955 S-adenosylmethionine binding site [chemical binding]; other site 225937010956 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 225937010957 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 225937010958 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 225937010959 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 225937010960 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 225937010961 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 225937010962 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 225937010963 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 225937010964 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 225937010965 catalytic residue [active] 225937010966 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 225937010967 catalytic residues [active] 225937010968 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225937010969 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937010970 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 225937010971 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 225937010972 catalytic triad [active] 225937010973 dimer interface [polypeptide binding]; other site 225937010974 peroxiredoxin; Region: AhpC; TIGR03137 225937010975 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 225937010976 dimer interface [polypeptide binding]; other site 225937010977 decamer (pentamer of dimers) interface [polypeptide binding]; other site 225937010978 catalytic triad [active] 225937010979 peroxidatic and resolving cysteines [active] 225937010980 BCCT family transporter; Region: BCCT; cl00569 225937010981 choline dehydrogenase; Validated; Region: PRK02106 225937010982 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 225937010983 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 225937010984 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 225937010985 tetrameric interface [polypeptide binding]; other site 225937010986 NAD binding site [chemical binding]; other site 225937010987 catalytic residues [active] 225937010988 transcriptional regulator BetI; Validated; Region: PRK00767 225937010989 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937010990 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 225937010991 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 225937010992 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 225937010993 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937010994 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937010995 metal binding site [ion binding]; metal-binding site 225937010996 active site 225937010997 I-site; other site 225937010998 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 225937010999 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 225937011000 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 225937011001 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 225937011002 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 225937011003 putative [Fe4-S4] binding site [ion binding]; other site 225937011004 putative molybdopterin cofactor binding site [chemical binding]; other site 225937011005 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 225937011006 putative molybdopterin cofactor binding site; other site 225937011007 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 225937011008 TPR repeat; Region: TPR_11; pfam13414 225937011009 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 225937011010 binding surface 225937011011 TPR motif; other site 225937011012 RES domain; Region: RES; smart00953 225937011013 Restriction endonuclease; Region: Mrr_cat; pfam04471 225937011014 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 225937011015 dimer interface [polypeptide binding]; other site 225937011016 putative radical transfer pathway; other site 225937011017 diiron center [ion binding]; other site 225937011018 tyrosyl radical; other site 225937011019 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 225937011020 ATP cone domain; Region: ATP-cone; pfam03477 225937011021 Class I ribonucleotide reductase; Region: RNR_I; cd01679 225937011022 active site 225937011023 dimer interface [polypeptide binding]; other site 225937011024 catalytic residues [active] 225937011025 effector binding site; other site 225937011026 R2 peptide binding site; other site 225937011027 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 225937011028 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 225937011029 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 225937011030 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937011031 Walker A motif; other site 225937011032 ATP binding site [chemical binding]; other site 225937011033 Walker B motif; other site 225937011034 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 225937011035 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 225937011036 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 225937011037 multimer interface [polypeptide binding]; other site 225937011038 active site 225937011039 catalytic triad [active] 225937011040 dimer interface [polypeptide binding]; other site 225937011041 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 225937011042 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 225937011043 Walker A/P-loop; other site 225937011044 ATP binding site [chemical binding]; other site 225937011045 Q-loop/lid; other site 225937011046 ABC transporter signature motif; other site 225937011047 Walker B; other site 225937011048 D-loop; other site 225937011049 H-loop/switch region; other site 225937011050 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 225937011051 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 225937011052 Walker A/P-loop; other site 225937011053 ATP binding site [chemical binding]; other site 225937011054 Q-loop/lid; other site 225937011055 ABC transporter signature motif; other site 225937011056 Walker B; other site 225937011057 D-loop; other site 225937011058 H-loop/switch region; other site 225937011059 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 225937011060 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 225937011061 TM-ABC transporter signature motif; other site 225937011062 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 225937011063 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 225937011064 TM-ABC transporter signature motif; other site 225937011065 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225937011066 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 225937011067 putative ligand binding site [chemical binding]; other site 225937011068 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 225937011069 Na binding site [ion binding]; other site 225937011070 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937011071 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937011072 dimer interface [polypeptide binding]; other site 225937011073 phosphorylation site [posttranslational modification] 225937011074 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 225937011075 ATP binding site [chemical binding]; other site 225937011076 Mg2+ binding site [ion binding]; other site 225937011077 G-X-G motif; other site 225937011078 Response regulator receiver domain; Region: Response_reg; pfam00072 225937011079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937011080 active site 225937011081 phosphorylation site [posttranslational modification] 225937011082 intermolecular recognition site; other site 225937011083 dimerization interface [polypeptide binding]; other site 225937011084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937011085 active site 225937011086 phosphorylation site [posttranslational modification] 225937011087 intermolecular recognition site; other site 225937011088 dimerization interface [polypeptide binding]; other site 225937011089 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937011090 DNA binding residues [nucleotide binding] 225937011091 dimerization interface [polypeptide binding]; other site 225937011092 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 225937011093 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 225937011094 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 225937011095 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937011096 active site 225937011097 phosphorylation site [posttranslational modification] 225937011098 intermolecular recognition site; other site 225937011099 dimerization interface [polypeptide binding]; other site 225937011100 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937011101 Zn2+ binding site [ion binding]; other site 225937011102 Mg2+ binding site [ion binding]; other site 225937011103 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 225937011104 ATP binding site [chemical binding]; other site 225937011105 Mg2+ binding site [ion binding]; other site 225937011106 G-X-G motif; other site 225937011107 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 225937011108 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 225937011109 HAMP domain; Region: HAMP; pfam00672 225937011110 dimerization interface [polypeptide binding]; other site 225937011111 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 225937011112 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011113 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011114 metal binding site [ion binding]; metal-binding site 225937011115 active site 225937011116 I-site; other site 225937011117 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 225937011118 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 225937011119 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 225937011120 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 225937011121 N-terminal plug; other site 225937011122 ligand-binding site [chemical binding]; other site 225937011123 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937011124 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937011125 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 225937011126 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 225937011127 glutaminase active site [active] 225937011128 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 225937011129 dimer interface [polypeptide binding]; other site 225937011130 active site 225937011131 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 225937011132 dimer interface [polypeptide binding]; other site 225937011133 active site 225937011134 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 225937011135 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 225937011136 Substrate binding site; other site 225937011137 Mg++ binding site; other site 225937011138 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 225937011139 active site 225937011140 substrate binding site [chemical binding]; other site 225937011141 CoA binding site [chemical binding]; other site 225937011142 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 225937011143 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 225937011144 gamma subunit interface [polypeptide binding]; other site 225937011145 epsilon subunit interface [polypeptide binding]; other site 225937011146 LBP interface [polypeptide binding]; other site 225937011147 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 225937011148 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 225937011149 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 225937011150 alpha subunit interaction interface [polypeptide binding]; other site 225937011151 Walker A motif; other site 225937011152 ATP binding site [chemical binding]; other site 225937011153 Walker B motif; other site 225937011154 inhibitor binding site; inhibition site 225937011155 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 225937011156 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 225937011157 core domain interface [polypeptide binding]; other site 225937011158 delta subunit interface [polypeptide binding]; other site 225937011159 epsilon subunit interface [polypeptide binding]; other site 225937011160 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 225937011161 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 225937011162 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 225937011163 beta subunit interaction interface [polypeptide binding]; other site 225937011164 Walker A motif; other site 225937011165 ATP binding site [chemical binding]; other site 225937011166 Walker B motif; other site 225937011167 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 225937011168 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 225937011169 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 225937011170 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 225937011171 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 225937011172 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 225937011173 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 225937011174 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 225937011175 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 225937011176 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 225937011177 ParB-like nuclease domain; Region: ParBc; pfam02195 225937011178 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 225937011179 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 225937011180 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937011181 P-loop; other site 225937011182 Magnesium ion binding site [ion binding]; other site 225937011183 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937011184 Magnesium ion binding site [ion binding]; other site 225937011185 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 225937011186 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 225937011187 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 225937011188 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 225937011189 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 225937011190 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 225937011191 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 225937011192 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225937011193 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937011194 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225937011195 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937011196 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 225937011197 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 225937011198 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 225937011199 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937011200 active site 225937011201 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 225937011202 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 225937011203 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 225937011204 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 225937011205 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 225937011206 GTP/Mg2+ binding site [chemical binding]; other site 225937011207 G4 box; other site 225937011208 G5 box; other site 225937011209 trmE is a tRNA modification GTPase; Region: trmE; cd04164 225937011210 G1 box; other site 225937011211 G1 box; other site 225937011212 GTP/Mg2+ binding site [chemical binding]; other site 225937011213 Switch I region; other site 225937011214 Switch I region; other site 225937011215 G2 box; other site 225937011216 G2 box; other site 225937011217 Switch II region; other site 225937011218 G3 box; other site 225937011219 G3 box; other site 225937011220 Switch II region; other site 225937011221 G4 box; other site 225937011222 G5 box; other site 225937011223 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 225937011224 membrane protein insertase; Provisional; Region: PRK01318 225937011225 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 225937011226 Ribonuclease P; Region: Ribonuclease_P; cl00457 225937011227 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 225937011228 DnaA N-terminal domain; Region: DnaA_N; pfam11638 225937011229 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 225937011230 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937011231 Walker A motif; other site 225937011232 ATP binding site [chemical binding]; other site 225937011233 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 225937011234 Walker B motif; other site 225937011235 arginine finger; other site 225937011236 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 225937011237 DnaA box-binding interface [nucleotide binding]; other site 225937011238 DNA polymerase III subunit beta; Validated; Region: PRK05643 225937011239 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 225937011240 putative DNA binding surface [nucleotide binding]; other site 225937011241 dimer interface [polypeptide binding]; other site 225937011242 beta-clamp/clamp loader binding surface; other site 225937011243 beta-clamp/translesion DNA polymerase binding surface; other site 225937011244 ABC1 family; Region: ABC1; cl17513 225937011245 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 225937011246 recombination protein F; Reviewed; Region: recF; PRK00064 225937011247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937011248 Walker A/P-loop; other site 225937011249 ATP binding site [chemical binding]; other site 225937011250 Q-loop/lid; other site 225937011251 ABC transporter signature motif; other site 225937011252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937011253 ABC transporter signature motif; other site 225937011254 Walker B; other site 225937011255 D-loop; other site 225937011256 H-loop/switch region; other site 225937011257 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 225937011258 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 225937011259 Mg2+ binding site [ion binding]; other site 225937011260 G-X-G motif; other site 225937011261 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 225937011262 anchoring element; other site 225937011263 dimer interface [polypeptide binding]; other site 225937011264 ATP binding site [chemical binding]; other site 225937011265 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 225937011266 active site 225937011267 putative metal-binding site [ion binding]; other site 225937011268 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 225937011269 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 225937011270 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 225937011271 inhibitor-cofactor binding pocket; inhibition site 225937011272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937011273 catalytic residue [active] 225937011274 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225937011275 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 225937011276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937011277 Walker A/P-loop; other site 225937011278 ATP binding site [chemical binding]; other site 225937011279 Q-loop/lid; other site 225937011280 ABC transporter signature motif; other site 225937011281 Walker B; other site 225937011282 D-loop; other site 225937011283 H-loop/switch region; other site 225937011284 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225937011285 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 225937011286 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 225937011287 Walker A/P-loop; other site 225937011288 ATP binding site [chemical binding]; other site 225937011289 Q-loop/lid; other site 225937011290 ABC transporter signature motif; other site 225937011291 Walker B; other site 225937011292 D-loop; other site 225937011293 H-loop/switch region; other site 225937011294 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 225937011295 putative active site [active] 225937011296 PAS fold; Region: PAS_3; pfam08447 225937011297 heme pocket [chemical binding]; other site 225937011298 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 225937011299 putative active site [active] 225937011300 heme pocket [chemical binding]; other site 225937011301 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011302 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011303 metal binding site [ion binding]; metal-binding site 225937011304 active site 225937011305 I-site; other site 225937011306 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 225937011307 AAA domain; Region: AAA_30; pfam13604 225937011308 Family description; Region: UvrD_C_2; pfam13538 225937011309 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 225937011310 Family description; Region: UvrD_C_2; pfam13538 225937011311 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 225937011312 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 225937011313 classical (c) SDRs; Region: SDR_c; cd05233 225937011314 NAD(P) binding site [chemical binding]; other site 225937011315 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 225937011316 active site 225937011317 dihydromonapterin reductase; Provisional; Region: PRK06483 225937011318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937011319 NAD(P) binding site [chemical binding]; other site 225937011320 active site 225937011321 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 225937011322 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 225937011323 DEAD_2; Region: DEAD_2; pfam06733 225937011324 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 225937011325 Predicted integral membrane protein (DUF2270); Region: DUF2270; cl02337 225937011326 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 225937011327 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 225937011328 active site 225937011329 phosphorylation site [posttranslational modification] 225937011330 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 225937011331 dimerization domain swap beta strand [polypeptide binding]; other site 225937011332 regulatory protein interface [polypeptide binding]; other site 225937011333 active site 225937011334 regulatory phosphorylation site [posttranslational modification]; other site 225937011335 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 225937011336 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 225937011337 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 225937011338 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 225937011339 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 225937011340 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 225937011341 putative substrate binding site [chemical binding]; other site 225937011342 putative ATP binding site [chemical binding]; other site 225937011343 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 225937011344 active site 225937011345 P-loop; other site 225937011346 phosphorylation site [posttranslational modification] 225937011347 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 225937011348 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 225937011349 active site 225937011350 P-loop; other site 225937011351 phosphorylation site [posttranslational modification] 225937011352 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 225937011353 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 225937011354 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225937011355 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 225937011356 PAS fold; Region: PAS_3; pfam08447 225937011357 putative active site [active] 225937011358 heme pocket [chemical binding]; other site 225937011359 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 225937011360 putative active site [active] 225937011361 heme pocket [chemical binding]; other site 225937011362 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011364 metal binding site [ion binding]; metal-binding site 225937011365 active site 225937011366 I-site; other site 225937011367 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225937011368 GAF domain; Region: GAF; pfam01590 225937011369 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225937011370 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 225937011371 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011372 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011373 metal binding site [ion binding]; metal-binding site 225937011374 active site 225937011375 I-site; other site 225937011376 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 225937011377 PAS domain S-box; Region: sensory_box; TIGR00229 225937011378 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 225937011379 putative active site [active] 225937011380 heme pocket [chemical binding]; other site 225937011381 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 225937011382 PAS domain; Region: PAS_9; pfam13426 225937011383 putative active site [active] 225937011384 heme pocket [chemical binding]; other site 225937011385 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011386 metal binding site [ion binding]; metal-binding site 225937011387 active site 225937011388 I-site; other site 225937011389 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 225937011390 PAS domain; Region: PAS_9; pfam13426 225937011391 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 225937011392 putative active site [active] 225937011393 heme pocket [chemical binding]; other site 225937011394 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937011395 dimer interface [polypeptide binding]; other site 225937011396 putative CheW interface [polypeptide binding]; other site 225937011397 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 225937011398 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 225937011399 DsrE/DsrF-like family; Region: DrsE; pfam02635 225937011400 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 225937011401 active site residue [active] 225937011402 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 225937011403 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 225937011404 dimer interface [polypeptide binding]; other site 225937011405 decamer (pentamer of dimers) interface [polypeptide binding]; other site 225937011406 catalytic triad [active] 225937011407 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 225937011408 PLD-like domain; Region: PLDc_2; pfam13091 225937011409 putative active site [active] 225937011410 catalytic site [active] 225937011411 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 225937011412 PLD-like domain; Region: PLDc_2; pfam13091 225937011413 putative active site [active] 225937011414 catalytic site [active] 225937011415 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 225937011416 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 225937011417 active site 225937011418 motif I; other site 225937011419 motif II; other site 225937011420 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 225937011421 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 225937011422 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 225937011423 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 225937011424 dimer interface [polypeptide binding]; other site 225937011425 motif 1; other site 225937011426 active site 225937011427 motif 2; other site 225937011428 motif 3; other site 225937011429 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 225937011430 TrkA-N domain; Region: TrkA_N; pfam02254 225937011431 TrkA-C domain; Region: TrkA_C; pfam02080 225937011432 TrkA-N domain; Region: TrkA_N; pfam02254 225937011433 TrkA-C domain; Region: TrkA_C; pfam02080 225937011434 16S rRNA methyltransferase B; Provisional; Region: PRK10901 225937011435 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 225937011436 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 225937011437 S-adenosylmethionine binding site [chemical binding]; other site 225937011438 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 225937011439 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 225937011440 putative active site [active] 225937011441 substrate binding site [chemical binding]; other site 225937011442 putative cosubstrate binding site; other site 225937011443 catalytic site [active] 225937011444 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 225937011445 substrate binding site [chemical binding]; other site 225937011446 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 225937011447 active site 225937011448 catalytic residues [active] 225937011449 metal binding site [ion binding]; metal-binding site 225937011450 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 225937011451 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225937011452 DNA protecting protein DprA; Region: dprA; TIGR00732 225937011453 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 225937011454 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 225937011455 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 225937011456 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 225937011457 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 225937011458 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 225937011459 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 225937011460 shikimate binding site; other site 225937011461 NAD(P) binding site [chemical binding]; other site 225937011462 flagellar motor protein MotP; Reviewed; Region: PRK06926 225937011463 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 225937011464 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 225937011465 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937011466 ligand binding site [chemical binding]; other site 225937011467 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 225937011468 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 225937011469 putative dimer interface [polypeptide binding]; other site 225937011470 Sulfatase; Region: Sulfatase; cl17466 225937011471 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 225937011472 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 225937011473 Ligand binding site; other site 225937011474 DXD motif; other site 225937011475 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 225937011476 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 225937011477 trimer interface [polypeptide binding]; other site 225937011478 putative metal binding site [ion binding]; other site 225937011479 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 225937011480 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 225937011481 active site 225937011482 Zn binding site [ion binding]; other site 225937011483 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 225937011484 Predicted permease [General function prediction only]; Region: COG2056 225937011485 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 225937011486 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 225937011487 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 225937011488 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 225937011489 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 225937011490 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011491 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011492 metal binding site [ion binding]; metal-binding site 225937011493 active site 225937011494 I-site; other site 225937011495 DoxX; Region: DoxX; pfam07681 225937011496 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 225937011497 apolar tunnel; other site 225937011498 heme binding site [chemical binding]; other site 225937011499 dimerization interface [polypeptide binding]; other site 225937011500 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 225937011501 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 225937011502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011503 metal binding site [ion binding]; metal-binding site 225937011504 active site 225937011505 I-site; other site 225937011506 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 225937011507 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 225937011508 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 225937011509 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 225937011510 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 225937011511 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 225937011512 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 225937011513 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 225937011514 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 225937011515 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 225937011516 Subunit I/III interface [polypeptide binding]; other site 225937011517 D-pathway; other site 225937011518 Subunit I/VIIc interface [polypeptide binding]; other site 225937011519 Subunit I/IV interface [polypeptide binding]; other site 225937011520 Subunit I/II interface [polypeptide binding]; other site 225937011521 Low-spin heme (heme a) binding site [chemical binding]; other site 225937011522 Subunit I/VIIa interface [polypeptide binding]; other site 225937011523 Subunit I/VIa interface [polypeptide binding]; other site 225937011524 Dimer interface; other site 225937011525 Putative water exit pathway; other site 225937011526 Binuclear center (heme a3/CuB) [ion binding]; other site 225937011527 K-pathway; other site 225937011528 Subunit I/Vb interface [polypeptide binding]; other site 225937011529 Putative proton exit pathway; other site 225937011530 Subunit I/VIb interface; other site 225937011531 Subunit I/VIc interface [polypeptide binding]; other site 225937011532 Electron transfer pathway; other site 225937011533 Subunit I/VIIIb interface [polypeptide binding]; other site 225937011534 Subunit I/VIIb interface [polypeptide binding]; other site 225937011535 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 225937011536 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 225937011537 Subunit III/VIIa interface [polypeptide binding]; other site 225937011538 Phospholipid binding site [chemical binding]; other site 225937011539 Subunit I/III interface [polypeptide binding]; other site 225937011540 Subunit III/VIb interface [polypeptide binding]; other site 225937011541 Subunit III/VIa interface; other site 225937011542 Subunit III/Vb interface [polypeptide binding]; other site 225937011543 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 225937011544 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 225937011545 potential frameshift: common BLAST hit: gi|120553012|ref|YP_957363.1| cytochrome oxidase assembly 225937011546 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 225937011547 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 225937011548 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 225937011549 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 225937011550 UbiA prenyltransferase family; Region: UbiA; pfam01040 225937011551 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 225937011552 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 225937011553 Cu(I) binding site [ion binding]; other site 225937011554 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 225937011555 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 225937011556 ATP binding site [chemical binding]; other site 225937011557 putative Mg++ binding site [ion binding]; other site 225937011558 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 225937011559 nucleotide binding region [chemical binding]; other site 225937011560 ATP-binding site [chemical binding]; other site 225937011561 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 225937011562 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 225937011563 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225937011564 Putative motility protein; Region: YjfB_motility; pfam14070 225937011565 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 225937011566 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 225937011567 dimer interface [polypeptide binding]; other site 225937011568 active site 225937011569 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225937011570 catalytic residues [active] 225937011571 substrate binding site [chemical binding]; other site 225937011572 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 225937011573 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937011574 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 225937011575 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 225937011576 G1 box; other site 225937011577 GTP/Mg2+ binding site [chemical binding]; other site 225937011578 G2 box; other site 225937011579 Switch I region; other site 225937011580 G3 box; other site 225937011581 Switch II region; other site 225937011582 G4 box; other site 225937011583 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 225937011584 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 225937011585 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 225937011586 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 225937011587 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225937011588 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 225937011589 PAS fold; Region: PAS_4; pfam08448 225937011590 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 225937011591 putative active site [active] 225937011592 heme pocket [chemical binding]; other site 225937011593 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 225937011594 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937011595 Walker A motif; other site 225937011596 ATP binding site [chemical binding]; other site 225937011597 Walker B motif; other site 225937011598 arginine finger; other site 225937011599 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937011600 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 225937011601 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 225937011602 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 225937011603 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 225937011604 DctM-like transporters; Region: DctM; pfam06808 225937011605 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 225937011606 classical (c) SDRs; Region: SDR_c; cd05233 225937011607 NAD(P) binding site [chemical binding]; other site 225937011608 active site 225937011609 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 225937011610 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 225937011611 acyl-activating enzyme (AAE) consensus motif; other site 225937011612 putative AMP binding site [chemical binding]; other site 225937011613 putative active site [active] 225937011614 putative CoA binding site [chemical binding]; other site 225937011615 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 225937011616 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 225937011617 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 225937011618 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 225937011619 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 225937011620 putative deacylase active site [active] 225937011621 PAS domain; Region: PAS_9; pfam13426 225937011622 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 225937011623 putative active site [active] 225937011624 heme pocket [chemical binding]; other site 225937011625 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011627 metal binding site [ion binding]; metal-binding site 225937011628 active site 225937011629 I-site; other site 225937011630 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 225937011631 Beta-lactamase; Region: Beta-lactamase; pfam00144 225937011632 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 225937011633 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 225937011634 PAS domain S-box; Region: sensory_box; TIGR00229 225937011635 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 225937011636 putative active site [active] 225937011637 heme pocket [chemical binding]; other site 225937011638 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937011639 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937011640 dimer interface [polypeptide binding]; other site 225937011641 phosphorylation site [posttranslational modification] 225937011642 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 225937011643 ATP binding site [chemical binding]; other site 225937011644 Mg2+ binding site [ion binding]; other site 225937011645 G-X-G motif; other site 225937011646 Response regulator receiver domain; Region: Response_reg; pfam00072 225937011647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937011648 active site 225937011649 phosphorylation site [posttranslational modification] 225937011650 intermolecular recognition site; other site 225937011651 dimerization interface [polypeptide binding]; other site 225937011652 Response regulator receiver domain; Region: Response_reg; pfam00072 225937011653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937011654 active site 225937011655 phosphorylation site [posttranslational modification] 225937011656 intermolecular recognition site; other site 225937011657 dimerization interface [polypeptide binding]; other site 225937011658 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 225937011659 putative binding surface; other site 225937011660 active site 225937011661 Response regulator receiver domain; Region: Response_reg; pfam00072 225937011662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937011663 active site 225937011664 phosphorylation site [posttranslational modification] 225937011665 intermolecular recognition site; other site 225937011666 dimerization interface [polypeptide binding]; other site 225937011667 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 225937011668 active site 225937011669 catalytic site [active] 225937011670 substrate binding site [chemical binding]; other site 225937011671 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 225937011672 Ligand Binding Site [chemical binding]; other site 225937011673 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 225937011674 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 225937011675 FeS/SAM binding site; other site 225937011676 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937011677 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937011678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937011679 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225937011680 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 225937011681 generic binding surface II; other site 225937011682 generic binding surface I; other site 225937011683 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 225937011684 putative catalytic site [active] 225937011685 putative metal binding site [ion binding]; other site 225937011686 putative phosphate binding site [ion binding]; other site 225937011687 Predicted transcriptional regulator [Transcription]; Region: COG2378 225937011688 WYL domain; Region: WYL; pfam13280 225937011689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937011690 putative substrate translocation pore; other site 225937011691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937011692 putative substrate translocation pore; other site 225937011693 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 225937011694 MarR family; Region: MarR_2; pfam12802 225937011695 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 225937011696 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 225937011697 putative substrate translocation pore; other site 225937011698 Predicted membrane protein [Function unknown]; Region: COG2119 225937011699 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 225937011700 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 225937011701 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225937011702 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 225937011703 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 225937011704 dimer interface [polypeptide binding]; other site 225937011705 active site residues [active] 225937011706 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 225937011707 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 225937011708 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 225937011709 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225937011710 potassium/proton antiporter; Reviewed; Region: PRK05326 225937011711 TrkA-C domain; Region: TrkA_C; pfam02080 225937011712 Transporter associated domain; Region: CorC_HlyC; smart01091 225937011713 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 225937011714 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937011715 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225937011716 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225937011717 Uncharacterized conserved protein [Function unknown]; Region: COG2128 225937011718 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 225937011719 FMN-binding domain; Region: FMN_bind; cl01081 225937011720 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 225937011721 4Fe-4S binding domain; Region: Fer4_5; pfam12801 225937011722 putative S-transferase; Provisional; Region: PRK11752 225937011723 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 225937011724 C-terminal domain interface [polypeptide binding]; other site 225937011725 GSH binding site (G-site) [chemical binding]; other site 225937011726 dimer interface [polypeptide binding]; other site 225937011727 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 225937011728 dimer interface [polypeptide binding]; other site 225937011729 N-terminal domain interface [polypeptide binding]; other site 225937011730 active site 225937011731 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 225937011732 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 225937011733 S-adenosylmethionine binding site [chemical binding]; other site 225937011734 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 225937011735 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 225937011736 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 225937011737 substrate binding site [chemical binding]; other site 225937011738 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 225937011739 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225937011740 putative active site [active] 225937011741 putative metal binding site [ion binding]; other site 225937011742 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 225937011743 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937011744 dimer interface [polypeptide binding]; other site 225937011745 conserved gate region; other site 225937011746 putative PBP binding loops; other site 225937011747 ABC-ATPase subunit interface; other site 225937011748 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 225937011749 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 225937011750 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 225937011751 Walker A/P-loop; other site 225937011752 ATP binding site [chemical binding]; other site 225937011753 Q-loop/lid; other site 225937011754 ABC transporter signature motif; other site 225937011755 Walker B; other site 225937011756 D-loop; other site 225937011757 H-loop/switch region; other site 225937011758 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 225937011759 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 225937011760 Uncharacterized conserved protein [Function unknown]; Region: COG0398 225937011761 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 225937011762 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 225937011763 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 225937011764 EthD domain; Region: EthD; cl17553 225937011765 Putative zinc-finger; Region: zf-HC2; pfam13490 225937011766 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 225937011767 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937011768 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937011769 DNA binding residues [nucleotide binding] 225937011770 Uncharacterized conserved protein [Function unknown]; Region: COG0398 225937011771 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 225937011772 mercuric reductase; Validated; Region: PRK06370 225937011773 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937011774 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225937011775 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 225937011776 Radical SAM superfamily; Region: Radical_SAM; pfam04055 225937011777 FeS/SAM binding site; other site 225937011778 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 225937011779 Na binding site [ion binding]; other site 225937011780 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225937011781 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225937011782 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225937011783 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225937011784 Coenzyme A binding pocket [chemical binding]; other site 225937011785 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 225937011786 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 225937011787 inhibitor-cofactor binding pocket; inhibition site 225937011788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225937011789 catalytic residue [active] 225937011790 aspartate kinase; Validated; Region: PRK09181 225937011791 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 225937011792 putative catalytic residues [active] 225937011793 putative nucleotide binding site [chemical binding]; other site 225937011794 putative aspartate binding site [chemical binding]; other site 225937011795 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 225937011796 allosteric regulatory residue; other site 225937011797 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 225937011798 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 225937011799 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937011800 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 225937011801 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937011802 DNA binding residues [nucleotide binding] 225937011803 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 225937011804 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 225937011805 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 225937011806 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 225937011807 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 225937011808 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 225937011809 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 225937011810 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 225937011811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011813 metal binding site [ion binding]; metal-binding site 225937011814 active site 225937011815 I-site; other site 225937011816 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 225937011817 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 225937011818 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 225937011819 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937011820 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 225937011821 substrate binding pocket [chemical binding]; other site 225937011822 membrane-bound complex binding site; other site 225937011823 hinge residues; other site 225937011824 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937011825 Zn2+ binding site [ion binding]; other site 225937011826 Mg2+ binding site [ion binding]; other site 225937011827 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 225937011828 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 225937011829 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 225937011830 short chain dehydrogenase; Provisional; Region: PRK06181 225937011831 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 225937011832 NADP binding site [chemical binding]; other site 225937011833 active site 225937011834 steroid binding site; other site 225937011835 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011836 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011837 metal binding site [ion binding]; metal-binding site 225937011838 active site 225937011839 I-site; other site 225937011840 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 225937011841 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 225937011842 putative active site [active] 225937011843 putative dimer interface [polypeptide binding]; other site 225937011844 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 225937011845 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 225937011846 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937011847 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937011848 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937011849 TM2 domain; Region: TM2; cl00984 225937011850 TM2 domain; Region: TM2; cl00984 225937011851 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 225937011852 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 225937011853 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937011854 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225937011855 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937011856 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225937011857 Protein export membrane protein; Region: SecD_SecF; cl14618 225937011858 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 225937011859 nitrite reductase subunit NirD; Provisional; Region: PRK14989 225937011860 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225937011861 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 225937011862 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 225937011863 Nitrate and nitrite sensing; Region: NIT; pfam08376 225937011864 ANTAR domain; Region: ANTAR; pfam03861 225937011865 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 225937011866 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 225937011867 active site 225937011868 Protein kinase domain; Region: Pkinase; pfam00069 225937011869 Catalytic domain of Protein Kinases; Region: PKc; cd00180 225937011870 active site 225937011871 ATP binding site [chemical binding]; other site 225937011872 substrate binding site [chemical binding]; other site 225937011873 activation loop (A-loop); other site 225937011874 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 225937011875 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225937011876 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225937011877 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225937011878 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 225937011879 Cache domain; Region: Cache_1; pfam02743 225937011880 PAS domain S-box; Region: sensory_box; TIGR00229 225937011881 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 225937011882 putative active site [active] 225937011883 heme pocket [chemical binding]; other site 225937011884 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 225937011885 PAS domain; Region: PAS_9; pfam13426 225937011886 putative active site [active] 225937011887 heme pocket [chemical binding]; other site 225937011888 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011889 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011890 metal binding site [ion binding]; metal-binding site 225937011891 active site 225937011892 I-site; other site 225937011893 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225937011894 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...; Region: LT_GEWL; cd00254 225937011895 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225937011896 catalytic residue [active] 225937011897 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 225937011898 Amidase; Region: Amidase; cl11426 225937011899 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 225937011900 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 225937011901 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 225937011902 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937011903 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937011904 DNA binding residues [nucleotide binding] 225937011905 Anti-sigma-K factor rskA; Region: RskA; pfam10099 225937011906 HDOD domain; Region: HDOD; pfam08668 225937011907 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 225937011908 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 225937011909 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 225937011910 Walker A/P-loop; other site 225937011911 ATP binding site [chemical binding]; other site 225937011912 Q-loop/lid; other site 225937011913 ABC transporter signature motif; other site 225937011914 Walker B; other site 225937011915 D-loop; other site 225937011916 H-loop/switch region; other site 225937011917 NIL domain; Region: NIL; pfam09383 225937011918 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937011919 dimer interface [polypeptide binding]; other site 225937011920 conserved gate region; other site 225937011921 ABC-ATPase subunit interface; other site 225937011922 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 225937011923 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 225937011924 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 225937011925 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 225937011926 dimer interface [polypeptide binding]; other site 225937011927 decamer (pentamer of dimers) interface [polypeptide binding]; other site 225937011928 catalytic triad [active] 225937011929 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 225937011930 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 225937011931 FOG: CBS domain [General function prediction only]; Region: COG0517 225937011932 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 225937011933 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 225937011934 S-formylglutathione hydrolase; Region: PLN02442 225937011935 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937011936 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937011937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937011938 metal binding site [ion binding]; metal-binding site 225937011939 active site 225937011940 I-site; other site 225937011941 multidrug efflux protein; Reviewed; Region: PRK01766 225937011942 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 225937011943 cation binding site [ion binding]; other site 225937011944 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 225937011945 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 225937011946 PAS fold; Region: PAS_3; pfam08447 225937011947 putative active site [active] 225937011948 heme pocket [chemical binding]; other site 225937011949 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937011950 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937011951 dimer interface [polypeptide binding]; other site 225937011952 putative CheW interface [polypeptide binding]; other site 225937011953 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 225937011954 Na2 binding site [ion binding]; other site 225937011955 putative substrate binding site 1 [chemical binding]; other site 225937011956 Na binding site 1 [ion binding]; other site 225937011957 putative substrate binding site 2 [chemical binding]; other site 225937011958 DctM-like transporters; Region: DctM; pfam06808 225937011959 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 225937011960 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 225937011961 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 225937011962 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 225937011963 CoenzymeA binding site [chemical binding]; other site 225937011964 subunit interaction site [polypeptide binding]; other site 225937011965 PHB binding site; other site 225937011966 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937011967 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 225937011968 FAD binding site [chemical binding]; other site 225937011969 substrate binding site [chemical binding]; other site 225937011970 catalytic base [active] 225937011971 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 225937011972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937011973 NAD(P) binding site [chemical binding]; other site 225937011974 active site 225937011975 Phosphotransferase enzyme family; Region: APH; pfam01636 225937011976 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 225937011977 putative active site [active] 225937011978 putative substrate binding site [chemical binding]; other site 225937011979 ATP binding site [chemical binding]; other site 225937011980 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 225937011981 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225937011982 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 225937011983 acyl-activating enzyme (AAE) consensus motif; other site 225937011984 putative AMP binding site [chemical binding]; other site 225937011985 putative active site [active] 225937011986 putative CoA binding site [chemical binding]; other site 225937011987 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 225937011988 sequence-specific DNA binding site [nucleotide binding]; other site 225937011989 salt bridge; other site 225937011990 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 225937011991 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 225937011992 active site 225937011993 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 225937011994 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 225937011995 FAD binding site [chemical binding]; other site 225937011996 substrate binding site [chemical binding]; other site 225937011997 catalytic base [active] 225937011998 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 225937011999 pyruvate carboxylase subunit A; Validated; Region: PRK07178 225937012000 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225937012001 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 225937012002 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 225937012003 pyruvate carboxylase subunit B; Validated; Region: PRK09282 225937012004 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 225937012005 active site 225937012006 catalytic residues [active] 225937012007 metal binding site [ion binding]; metal-binding site 225937012008 homodimer binding site [polypeptide binding]; other site 225937012009 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 225937012010 carboxyltransferase (CT) interaction site; other site 225937012011 biotinylation site [posttranslational modification]; other site 225937012012 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 225937012013 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225937012014 FAD binding site [chemical binding]; other site 225937012015 substrate binding pocket [chemical binding]; other site 225937012016 catalytic base [active] 225937012017 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 225937012018 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 225937012019 putative ligand binding site [chemical binding]; other site 225937012020 NAD binding site [chemical binding]; other site 225937012021 dimerization interface [polypeptide binding]; other site 225937012022 catalytic site [active] 225937012023 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 225937012024 Transcriptional regulator [Transcription]; Region: IclR; COG1414 225937012025 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 225937012026 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 225937012027 substrate binding site [chemical binding]; other site 225937012028 oxyanion hole (OAH) forming residues; other site 225937012029 trimer interface [polypeptide binding]; other site 225937012030 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 225937012031 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225937012032 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225937012033 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 225937012034 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 225937012035 dimer interface [polypeptide binding]; other site 225937012036 active site 225937012037 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 225937012038 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 225937012039 NAD binding site [chemical binding]; other site 225937012040 catalytic Zn binding site [ion binding]; other site 225937012041 substrate binding site [chemical binding]; other site 225937012042 structural Zn binding site [ion binding]; other site 225937012043 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 225937012044 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 225937012045 NAD binding site [chemical binding]; other site 225937012046 catalytic residues [active] 225937012047 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225937012048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937012049 active site 225937012050 phosphorylation site [posttranslational modification] 225937012051 intermolecular recognition site; other site 225937012052 dimerization interface [polypeptide binding]; other site 225937012053 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937012054 DNA binding site [nucleotide binding] 225937012055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937012056 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937012057 dimer interface [polypeptide binding]; other site 225937012058 phosphorylation site [posttranslational modification] 225937012059 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 225937012060 ATP binding site [chemical binding]; other site 225937012061 Mg2+ binding site [ion binding]; other site 225937012062 G-X-G motif; other site 225937012063 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 225937012064 methionine sulfoxide reductase B; Provisional; Region: PRK00222 225937012065 SelR domain; Region: SelR; pfam01641 225937012066 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 225937012067 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 225937012068 active site 225937012069 catalytic site [active] 225937012070 substrate binding site [chemical binding]; other site 225937012071 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 225937012072 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 225937012073 ligand binding site [chemical binding]; other site 225937012074 flexible hinge region; other site 225937012075 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 225937012076 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225937012077 metal binding triad; other site 225937012078 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 225937012079 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 225937012080 N-terminal plug; other site 225937012081 ligand-binding site [chemical binding]; other site 225937012082 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 225937012083 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 225937012084 cobalamin binding residues [chemical binding]; other site 225937012085 putative BtuC binding residues; other site 225937012086 dimer interface [polypeptide binding]; other site 225937012087 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 225937012088 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 225937012089 dimer interface [polypeptide binding]; other site 225937012090 putative PBP binding regions; other site 225937012091 ABC-ATPase subunit interface; other site 225937012092 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 225937012093 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 225937012094 Walker A/P-loop; other site 225937012095 ATP binding site [chemical binding]; other site 225937012096 Q-loop/lid; other site 225937012097 ABC transporter signature motif; other site 225937012098 Walker B; other site 225937012099 D-loop; other site 225937012100 H-loop/switch region; other site 225937012101 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 225937012102 homotrimer interaction site [polypeptide binding]; other site 225937012103 putative active site [active] 225937012104 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 225937012105 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 225937012106 active site residue [active] 225937012107 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 225937012108 active site residue [active] 225937012109 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 225937012110 osmolarity response regulator; Provisional; Region: ompR; PRK09468 225937012111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937012112 active site 225937012113 phosphorylation site [posttranslational modification] 225937012114 intermolecular recognition site; other site 225937012115 dimerization interface [polypeptide binding]; other site 225937012116 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937012117 DNA binding site [nucleotide binding] 225937012118 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937012119 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937012120 dimerization interface [polypeptide binding]; other site 225937012121 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 225937012122 ATP binding site [chemical binding]; other site 225937012123 Mg2+ binding site [ion binding]; other site 225937012124 G-X-G motif; other site 225937012125 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 225937012126 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 225937012127 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 225937012128 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 225937012129 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 225937012130 Ligand binding site; other site 225937012131 Putative Catalytic site; other site 225937012132 DXD motif; other site 225937012133 sensor protein QseC; Provisional; Region: PRK10337 225937012134 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 225937012135 dimer interface [polypeptide binding]; other site 225937012136 phosphorylation site [posttranslational modification] 225937012137 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 225937012138 ATP binding site [chemical binding]; other site 225937012139 Mg2+ binding site [ion binding]; other site 225937012140 G-X-G motif; other site 225937012141 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225937012142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937012143 active site 225937012144 phosphorylation site [posttranslational modification] 225937012145 intermolecular recognition site; other site 225937012146 dimerization interface [polypeptide binding]; other site 225937012147 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 225937012148 DNA binding site [nucleotide binding] 225937012149 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 225937012150 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 225937012151 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 225937012152 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 225937012153 Ligand binding site; other site 225937012154 Putative Catalytic site; other site 225937012155 DXD motif; other site 225937012156 GtrA-like protein; Region: GtrA; pfam04138 225937012157 Thermostable hemolysin; Region: T_hemolysin; pfam12261 225937012158 AMP-binding enzyme; Region: AMP-binding; pfam00501 225937012159 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 225937012160 acyl-activating enzyme (AAE) consensus motif; other site 225937012161 putative AMP binding site [chemical binding]; other site 225937012162 putative active site [active] 225937012163 putative CoA binding site [chemical binding]; other site 225937012164 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 225937012165 heme binding pocket [chemical binding]; other site 225937012166 heme ligand [chemical binding]; other site 225937012167 short chain dehydrogenase; Provisional; Region: PRK09072 225937012168 classical (c) SDRs; Region: SDR_c; cd05233 225937012169 NAD(P) binding site [chemical binding]; other site 225937012170 active site 225937012171 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 225937012172 TPR motif; other site 225937012173 binding surface 225937012174 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 225937012175 PAS fold; Region: PAS_3; pfam08447 225937012176 putative active site [active] 225937012177 heme pocket [chemical binding]; other site 225937012178 GAF domain; Region: GAF; pfam01590 225937012179 GAF domain; Region: GAF_2; pfam13185 225937012180 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012181 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012182 metal binding site [ion binding]; metal-binding site 225937012183 active site 225937012184 I-site; other site 225937012185 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 225937012186 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 225937012187 high affinity sulphate transporter 1; Region: sulP; TIGR00815 225937012188 Sulfate transporter family; Region: Sulfate_transp; pfam00916 225937012189 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 225937012190 Predicted membrane protein [Function unknown]; Region: COG3235 225937012191 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 225937012192 PAS domain; Region: PAS_9; pfam13426 225937012193 putative active site [active] 225937012194 heme pocket [chemical binding]; other site 225937012195 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 225937012196 PAS domain; Region: PAS_9; pfam13426 225937012197 putative active site [active] 225937012198 heme pocket [chemical binding]; other site 225937012199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012201 metal binding site [ion binding]; metal-binding site 225937012202 active site 225937012203 I-site; other site 225937012204 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 225937012205 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 225937012206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937012207 active site 225937012208 phosphorylation site [posttranslational modification] 225937012209 intermolecular recognition site; other site 225937012210 dimerization interface [polypeptide binding]; other site 225937012211 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937012212 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937012213 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 225937012214 ATP binding site [chemical binding]; other site 225937012215 G-X-G motif; other site 225937012216 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 225937012217 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 225937012218 Predicted membrane protein [Function unknown]; Region: COG1288 225937012219 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 225937012220 arginine deiminase; Provisional; Region: PRK01388 225937012221 ornithine carbamoyltransferase; Validated; Region: PRK02102 225937012222 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 225937012223 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 225937012224 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 225937012225 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 225937012226 putative substrate binding site [chemical binding]; other site 225937012227 homodimer interface [polypeptide binding]; other site 225937012228 nucleotide binding site [chemical binding]; other site 225937012229 nucleotide binding site [chemical binding]; other site 225937012230 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 225937012231 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 225937012232 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 225937012233 alpha subunit interaction interface [polypeptide binding]; other site 225937012234 Walker A motif; other site 225937012235 ATP binding site [chemical binding]; other site 225937012236 Walker B motif; other site 225937012237 inhibitor binding site; inhibition site 225937012238 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 225937012239 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 225937012240 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 225937012241 gamma subunit interface [polypeptide binding]; other site 225937012242 epsilon subunit interface [polypeptide binding]; other site 225937012243 LBP interface [polypeptide binding]; other site 225937012244 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 225937012245 ATP synthase A chain; Region: ATP-synt_A; cl00413 225937012246 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 225937012247 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 225937012248 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 225937012249 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 225937012250 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 225937012251 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 225937012252 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 225937012253 Walker A motif; other site 225937012254 ATP binding site [chemical binding]; other site 225937012255 Walker B motif; other site 225937012256 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 225937012257 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 225937012258 core domain interface [polypeptide binding]; other site 225937012259 delta subunit interface [polypeptide binding]; other site 225937012260 epsilon subunit interface [polypeptide binding]; other site 225937012261 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937012262 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225937012263 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 225937012264 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225937012265 Protein export membrane protein; Region: SecD_SecF; cl14618 225937012266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012268 metal binding site [ion binding]; metal-binding site 225937012269 active site 225937012270 I-site; other site 225937012271 Ion channel; Region: Ion_trans_2; pfam07885 225937012272 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225937012273 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225937012274 HlyD family secretion protein; Region: HlyD_3; pfam13437 225937012275 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225937012276 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 225937012277 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225937012278 Walker A/P-loop; other site 225937012279 ATP binding site [chemical binding]; other site 225937012280 Q-loop/lid; other site 225937012281 ABC transporter signature motif; other site 225937012282 Walker B; other site 225937012283 D-loop; other site 225937012284 H-loop/switch region; other site 225937012285 FtsX-like permease family; Region: FtsX; pfam02687 225937012286 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 225937012287 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 225937012288 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 225937012289 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 225937012290 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937012291 ligand binding site [chemical binding]; other site 225937012292 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 225937012293 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 225937012294 Uncharacterized conserved protein [Function unknown]; Region: COG3339 225937012295 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 225937012296 DTW domain; Region: DTW; cl01221 225937012297 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 225937012298 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937012299 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 225937012300 DNA photolyase; Region: DNA_photolyase; pfam00875 225937012301 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 225937012302 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 225937012303 substrate binding site [chemical binding]; other site 225937012304 catalytic Zn binding site [ion binding]; other site 225937012305 NAD binding site [chemical binding]; other site 225937012306 structural Zn binding site [ion binding]; other site 225937012307 dimer interface [polypeptide binding]; other site 225937012308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 225937012309 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 225937012310 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 225937012311 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 225937012312 Activator of aromatic catabolism; Region: XylR_N; pfam06505 225937012313 V4R domain; Region: V4R; pfam02830 225937012314 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 225937012315 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 225937012316 Walker A motif; other site 225937012317 ATP binding site [chemical binding]; other site 225937012318 Walker B motif; other site 225937012319 arginine finger; other site 225937012320 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225937012321 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 225937012322 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 225937012323 dimerization interface [polypeptide binding]; other site 225937012324 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 225937012325 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 225937012326 dimerization interface [polypeptide binding]; other site 225937012327 putative path to active site cavity [active] 225937012328 diiron center [ion binding]; other site 225937012329 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 225937012330 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 225937012331 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 225937012332 catalytic loop [active] 225937012333 iron binding site [ion binding]; other site 225937012334 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)H...; Region: phenol_2-monooxygenase_like; cd06211 225937012335 FAD binding pocket [chemical binding]; other site 225937012336 FAD binding motif [chemical binding]; other site 225937012337 phosphate binding motif [ion binding]; other site 225937012338 beta-alpha-beta structure motif; other site 225937012339 NAD binding pocket [chemical binding]; other site 225937012340 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 225937012341 catalytic loop [active] 225937012342 iron binding site [ion binding]; other site 225937012343 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 225937012344 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 225937012345 tetramer interface [polypeptide binding]; other site 225937012346 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 225937012347 tetramer interface [polypeptide binding]; other site 225937012348 active site 225937012349 Fe binding site [ion binding]; other site 225937012350 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 225937012351 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 225937012352 NAD binding site [chemical binding]; other site 225937012353 catalytic residues [active] 225937012354 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 225937012355 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 225937012356 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 225937012357 acetaldehyde dehydrogenase; Validated; Region: PRK08300 225937012358 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 225937012359 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 225937012360 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 225937012361 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 225937012362 active site 225937012363 catalytic residues [active] 225937012364 metal binding site [ion binding]; metal-binding site 225937012365 DmpG-like communication domain; Region: DmpG_comm; pfam07836 225937012366 4-oxalocrotonate decarboxylase; Region: catechol_dmpH; TIGR03218 225937012367 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 225937012368 active site 1 [active] 225937012369 dimer interface [polypeptide binding]; other site 225937012370 hexamer interface [polypeptide binding]; other site 225937012371 active site 2 [active] 225937012372 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 225937012373 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 225937012374 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 225937012375 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 225937012376 hypothetical protein; Validated; Region: PRK09039 225937012377 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937012378 ligand binding site [chemical binding]; other site 225937012379 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 225937012380 active site 225937012381 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 225937012382 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 225937012383 potential catalytic triad [active] 225937012384 conserved cys residue [active] 225937012385 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937012386 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225937012387 substrate binding pocket [chemical binding]; other site 225937012388 membrane-bound complex binding site; other site 225937012389 hinge residues; other site 225937012390 conserved hypothetical protein; Region: MG423; TIGR00649 225937012391 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225937012392 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 225937012393 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 225937012394 substrate binding pocket [chemical binding]; other site 225937012395 membrane-bound complex binding site; other site 225937012396 hinge residues; other site 225937012397 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 225937012398 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 225937012399 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937012400 Zn2+ binding site [ion binding]; other site 225937012401 Mg2+ binding site [ion binding]; other site 225937012402 GAF domain; Region: GAF; cl17456 225937012403 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 225937012404 putative active site [active] 225937012405 heme pocket [chemical binding]; other site 225937012406 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012407 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012408 metal binding site [ion binding]; metal-binding site 225937012409 active site 225937012410 I-site; other site 225937012411 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 225937012412 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 225937012413 CoenzymeA binding site [chemical binding]; other site 225937012414 subunit interaction site [polypeptide binding]; other site 225937012415 PHB binding site; other site 225937012416 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012417 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012418 metal binding site [ion binding]; metal-binding site 225937012419 active site 225937012420 I-site; other site 225937012421 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 225937012422 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 225937012423 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937012424 Zn2+ binding site [ion binding]; other site 225937012425 Mg2+ binding site [ion binding]; other site 225937012426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 225937012427 SEC-C motif; Region: SEC-C; pfam02810 225937012428 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 225937012429 active site residue [active] 225937012430 Protein of unknown function, DUF393; Region: DUF393; pfam04134 225937012431 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 225937012432 catalytic core [active] 225937012433 CHAD domain; Region: CHAD; pfam05235 225937012434 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 225937012435 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937012436 dimerization interface [polypeptide binding]; other site 225937012437 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937012438 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937012439 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937012440 dimer interface [polypeptide binding]; other site 225937012441 putative CheW interface [polypeptide binding]; other site 225937012442 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 225937012443 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 225937012444 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 225937012445 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937012446 Walker A/P-loop; other site 225937012447 ATP binding site [chemical binding]; other site 225937012448 Q-loop/lid; other site 225937012449 ABC transporter signature motif; other site 225937012450 Walker B; other site 225937012451 D-loop; other site 225937012452 H-loop/switch region; other site 225937012453 TOBE domain; Region: TOBE_2; pfam08402 225937012454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937012455 dimer interface [polypeptide binding]; other site 225937012456 conserved gate region; other site 225937012457 putative PBP binding loops; other site 225937012458 ABC-ATPase subunit interface; other site 225937012459 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 225937012460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937012461 dimer interface [polypeptide binding]; other site 225937012462 conserved gate region; other site 225937012463 putative PBP binding loops; other site 225937012464 ABC-ATPase subunit interface; other site 225937012465 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 225937012466 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 225937012467 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 225937012468 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 225937012469 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 225937012470 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937012471 Walker A/P-loop; other site 225937012472 ATP binding site [chemical binding]; other site 225937012473 Q-loop/lid; other site 225937012474 ABC transporter signature motif; other site 225937012475 Walker B; other site 225937012476 D-loop; other site 225937012477 H-loop/switch region; other site 225937012478 TOBE domain; Region: TOBE_2; pfam08402 225937012479 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937012480 dimer interface [polypeptide binding]; other site 225937012481 conserved gate region; other site 225937012482 putative PBP binding loops; other site 225937012483 ABC-ATPase subunit interface; other site 225937012484 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 225937012485 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937012486 dimer interface [polypeptide binding]; other site 225937012487 conserved gate region; other site 225937012488 putative PBP binding loops; other site 225937012489 ABC-ATPase subunit interface; other site 225937012490 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 225937012491 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 225937012492 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 225937012493 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012494 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012495 metal binding site [ion binding]; metal-binding site 225937012496 active site 225937012497 I-site; other site 225937012498 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 225937012499 Ligand Binding Site [chemical binding]; other site 225937012500 DctM-like transporters; Region: DctM; pfam06808 225937012501 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 225937012502 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 225937012503 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 225937012504 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 225937012505 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 225937012506 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 225937012507 catalytic residues [active] 225937012508 dimer interface [polypeptide binding]; other site 225937012509 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 225937012510 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 225937012511 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 225937012512 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225937012513 Homo sapiens 239FB and related proteins, metallophosphatase domain; Region: MPP_239FB; cd07379 225937012514 putative active site [active] 225937012515 putative metal binding site [ion binding]; other site 225937012516 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225937012517 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 225937012518 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 225937012519 substrate binding site [chemical binding]; other site 225937012520 oxyanion hole (OAH) forming residues; other site 225937012521 trimer interface [polypeptide binding]; other site 225937012522 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 225937012523 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 225937012524 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 225937012525 Methyltransferase domain; Region: Methyltransf_31; pfam13847 225937012526 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 225937012527 S-adenosylmethionine binding site [chemical binding]; other site 225937012528 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 225937012529 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937012530 P-loop; other site 225937012531 Magnesium ion binding site [ion binding]; other site 225937012532 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937012533 Magnesium ion binding site [ion binding]; other site 225937012534 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225937012535 DNA-binding site [nucleotide binding]; DNA binding site 225937012536 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 225937012537 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 225937012538 Cysteine-rich domain; Region: CCG; pfam02754 225937012539 Cysteine-rich domain; Region: CCG; pfam02754 225937012540 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 225937012541 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 225937012542 4Fe-4S binding domain; Region: Fer4; pfam00037 225937012543 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 225937012544 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 225937012545 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 225937012546 FAD binding domain; Region: FAD_binding_4; pfam01565 225937012547 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 225937012548 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 225937012549 Cysteine-rich domain; Region: CCG; pfam02754 225937012550 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 225937012551 dimer interface [polypeptide binding]; other site 225937012552 FMN binding site [chemical binding]; other site 225937012553 NADPH bind site [chemical binding]; other site 225937012554 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012555 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012556 metal binding site [ion binding]; metal-binding site 225937012557 active site 225937012558 I-site; other site 225937012559 enoyl-CoA hydratase; Provisional; Region: PRK06688 225937012560 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 225937012561 substrate binding site [chemical binding]; other site 225937012562 oxyanion hole (OAH) forming residues; other site 225937012563 trimer interface [polypeptide binding]; other site 225937012564 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 225937012565 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 225937012566 Walker A/P-loop; other site 225937012567 ATP binding site [chemical binding]; other site 225937012568 Q-loop/lid; other site 225937012569 ABC transporter signature motif; other site 225937012570 Walker B; other site 225937012571 D-loop; other site 225937012572 H-loop/switch region; other site 225937012573 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 225937012574 TM-ABC transporter signature motif; other site 225937012575 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 225937012576 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 225937012577 TM-ABC transporter signature motif; other site 225937012578 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225937012579 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 225937012580 putative ligand binding site [chemical binding]; other site 225937012581 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 225937012582 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 225937012583 Walker A/P-loop; other site 225937012584 ATP binding site [chemical binding]; other site 225937012585 Q-loop/lid; other site 225937012586 ABC transporter signature motif; other site 225937012587 Walker B; other site 225937012588 D-loop; other site 225937012589 H-loop/switch region; other site 225937012590 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 225937012591 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225937012592 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 225937012593 acyl-activating enzyme (AAE) consensus motif; other site 225937012594 putative AMP binding site [chemical binding]; other site 225937012595 putative active site [active] 225937012596 putative CoA binding site [chemical binding]; other site 225937012597 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 225937012598 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 225937012599 heme-binding site [chemical binding]; other site 225937012600 endonuclease VIII; Provisional; Region: PRK10445 225937012601 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 225937012602 H2TH interface [polypeptide binding]; other site 225937012603 DNA binding site [nucleotide binding] 225937012604 putative catalytic residues [active] 225937012605 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 225937012606 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 225937012607 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 225937012608 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 225937012609 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 225937012610 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 225937012611 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 225937012612 dimerization interface [polypeptide binding]; other site 225937012613 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937012614 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937012615 dimer interface [polypeptide binding]; other site 225937012616 putative CheW interface [polypeptide binding]; other site 225937012617 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 225937012618 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 225937012619 putative active site [active] 225937012620 heme pocket [chemical binding]; other site 225937012621 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 225937012622 PAS domain; Region: PAS_9; pfam13426 225937012623 putative active site [active] 225937012624 heme pocket [chemical binding]; other site 225937012625 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012627 metal binding site [ion binding]; metal-binding site 225937012628 active site 225937012629 I-site; other site 225937012630 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 225937012631 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 225937012632 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 225937012633 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 225937012634 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 225937012635 4Fe-4S binding domain; Region: Fer4; cl02805 225937012636 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 225937012637 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 225937012638 [4Fe-4S] binding site [ion binding]; other site 225937012639 molybdopterin cofactor binding site; other site 225937012640 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 225937012641 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 225937012642 molybdopterin cofactor binding site; other site 225937012643 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 225937012644 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 225937012645 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 225937012646 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 225937012647 4Fe-4S binding domain; Region: Fer4; pfam00037 225937012648 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 225937012649 4Fe-4S binding domain; Region: Fer4; pfam00037 225937012650 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 225937012651 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 225937012652 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 225937012653 Walker A motif; other site 225937012654 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 225937012655 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 225937012656 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK14690 225937012657 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 225937012658 dimer interface [polypeptide binding]; other site 225937012659 putative functional site; other site 225937012660 putative MPT binding site; other site 225937012661 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 225937012662 Walker A motif; other site 225937012663 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 225937012664 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 225937012665 GTP binding site; other site 225937012666 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 225937012667 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 225937012668 PBP superfamily domain; Region: PBP_like_2; pfam12849 225937012669 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14250 225937012670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937012671 Walker A/P-loop; other site 225937012672 ATP binding site [chemical binding]; other site 225937012673 Q-loop/lid; other site 225937012674 ABC transporter signature motif; other site 225937012675 Walker B; other site 225937012676 D-loop; other site 225937012677 H-loop/switch region; other site 225937012678 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 225937012679 dimer interface [polypeptide binding]; other site 225937012680 conserved gate region; other site 225937012681 putative PBP binding loops; other site 225937012682 ABC-ATPase subunit interface; other site 225937012683 Helix-turn-helix domain; Region: HTH_17; pfam12728 225937012684 PBP superfamily domain; Region: PBP_like; pfam12727 225937012685 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 225937012686 FAD binding domain; Region: FAD_binding_4; pfam01565 225937012687 Glutaredoxin; Region: Glutaredoxin; pfam00462 225937012688 MarR family; Region: MarR_2; pfam12802 225937012689 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 225937012690 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 225937012691 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225937012692 active site 225937012693 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 225937012694 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 225937012695 substrate binding site [chemical binding]; other site 225937012696 oxyanion hole (OAH) forming residues; other site 225937012697 trimer interface [polypeptide binding]; other site 225937012698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937012699 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 225937012700 NAD(P) binding site [chemical binding]; other site 225937012701 active site 225937012702 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 225937012703 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 225937012704 acyl-activating enzyme (AAE) consensus motif; other site 225937012705 putative AMP binding site [chemical binding]; other site 225937012706 putative active site [active] 225937012707 putative CoA binding site [chemical binding]; other site 225937012708 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225937012709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225937012710 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 225937012711 dimerization interface [polypeptide binding]; other site 225937012712 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 225937012713 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225937012714 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 225937012715 choline dehydrogenase; Validated; Region: PRK02106 225937012716 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 225937012717 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 225937012718 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 225937012719 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 225937012720 PAS domain; Region: PAS_9; pfam13426 225937012721 putative active site [active] 225937012722 heme pocket [chemical binding]; other site 225937012723 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012724 metal binding site [ion binding]; metal-binding site 225937012725 active site 225937012726 I-site; other site 225937012727 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 225937012728 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 225937012729 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 225937012730 putative active site [active] 225937012731 heme pocket [chemical binding]; other site 225937012732 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012734 metal binding site [ion binding]; metal-binding site 225937012735 active site 225937012736 I-site; other site 225937012737 Transglycosylase; Region: Transgly; pfam00912 225937012738 Restriction endonuclease; Region: Mrr_cat; pfam04471 225937012739 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 225937012740 TMP-binding site; other site 225937012741 ATP-binding site [chemical binding]; other site 225937012742 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 225937012743 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 225937012744 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 225937012745 FeS/SAM binding site; other site 225937012746 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 225937012747 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 225937012748 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 225937012749 sequence-specific DNA binding site [nucleotide binding]; other site 225937012750 salt bridge; other site 225937012751 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 225937012752 active site 225937012753 catalytic residues [active] 225937012754 DNA binding site [nucleotide binding] 225937012755 Int/Topo IB signature motif; other site 225937012756 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 225937012757 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225937012758 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 225937012759 S-adenosylmethionine binding site [chemical binding]; other site 225937012760 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 225937012761 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 225937012762 PAS domain; Region: PAS_9; pfam13426 225937012763 putative active site [active] 225937012764 heme pocket [chemical binding]; other site 225937012765 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937012766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937012767 metal binding site [ion binding]; metal-binding site 225937012768 active site 225937012769 I-site; other site 225937012770 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225937012771 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 225937012772 PBP superfamily domain; Region: PBP_like; pfam12727 225937012773 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 225937012774 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 225937012775 putative dimer interface [polypeptide binding]; other site 225937012776 [2Fe-2S] cluster binding site [ion binding]; other site 225937012777 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 225937012778 putative dimer interface [polypeptide binding]; other site 225937012779 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 225937012780 SLBB domain; Region: SLBB; pfam10531 225937012781 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 225937012782 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 225937012783 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 225937012784 catalytic loop [active] 225937012785 iron binding site [ion binding]; other site 225937012786 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 225937012787 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 225937012788 [4Fe-4S] binding site [ion binding]; other site 225937012789 molybdopterin cofactor binding site; other site 225937012790 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 225937012791 molybdopterin cofactor binding site; other site 225937012792 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 225937012793 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 225937012794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225937012795 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 225937012796 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 225937012797 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 225937012798 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 225937012799 acyl-activating enzyme (AAE) consensus motif; other site 225937012800 putative AMP binding site [chemical binding]; other site 225937012801 putative active site [active] 225937012802 putative CoA binding site [chemical binding]; other site 225937012803 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 225937012804 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 225937012805 active site 225937012806 catalytic residues [active] 225937012807 metal binding site [ion binding]; metal-binding site 225937012808 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 225937012809 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225937012810 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225937012811 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 225937012812 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 225937012813 carboxyltransferase (CT) interaction site; other site 225937012814 biotinylation site [posttranslational modification]; other site 225937012815 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 225937012816 substrate binding site [chemical binding]; other site 225937012817 oxyanion hole (OAH) forming residues; other site 225937012818 trimer interface [polypeptide binding]; other site 225937012819 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 225937012820 putative dimer interface [polypeptide binding]; other site 225937012821 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 225937012822 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 225937012823 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 225937012824 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 225937012825 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 225937012826 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 225937012827 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 225937012828 ATP binding site [chemical binding]; other site 225937012829 Walker A motif; other site 225937012830 hexamer interface [polypeptide binding]; other site 225937012831 Walker B motif; other site 225937012832 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 225937012833 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225937012834 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 225937012835 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225937012836 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 225937012837 binding surface 225937012838 TPR repeat; Region: TPR_11; pfam13414 225937012839 TPR motif; other site 225937012840 PAS domain; Region: PAS_8; pfam13188 225937012841 GAF domain; Region: GAF_3; pfam13492 225937012842 GAF domain; Region: GAF_2; pfam13185 225937012843 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 225937012844 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 225937012845 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 225937012846 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 225937012847 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 225937012848 anti sigma factor interaction site; other site 225937012849 regulatory phosphorylation site [posttranslational modification]; other site 225937012850 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 225937012851 DNA photolyase; Region: DNA_photolyase; pfam00875 225937012852 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 225937012853 Predicted amidohydrolase [General function prediction only]; Region: COG0388 225937012854 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 225937012855 active site 225937012856 catalytic triad [active] 225937012857 dimer interface [polypeptide binding]; other site 225937012858 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225937012859 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937012860 HipA-like N-terminal domain; Region: HipA_N; pfam07805 225937012861 HipA-like C-terminal domain; Region: HipA_C; pfam07804 225937012862 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 225937012863 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 225937012864 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 225937012865 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 225937012866 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 225937012867 polysaccharide export protein Wza; Provisional; Region: PRK15078 225937012868 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 225937012869 SLBB domain; Region: SLBB; pfam10531 225937012870 Low molecular weight phosphatase family; Region: LMWPc; cd00115 225937012871 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 225937012872 active site 225937012873 tyrosine kinase; Provisional; Region: PRK11519 225937012874 Chain length determinant protein; Region: Wzz; pfam02706 225937012875 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 225937012876 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 225937012877 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 225937012878 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 225937012879 NAD binding site [chemical binding]; other site 225937012880 substrate binding site [chemical binding]; other site 225937012881 homodimer interface [polypeptide binding]; other site 225937012882 active site 225937012883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225937012884 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 225937012885 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 225937012886 substrate binding site; other site 225937012887 tetramer interface; other site 225937012888 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 225937012889 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 225937012890 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 225937012891 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937012892 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 225937012893 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 225937012894 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 225937012895 active site 225937012896 homodimer interface [polypeptide binding]; other site 225937012897 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 225937012898 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937012899 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 225937012900 putative ADP-binding pocket [chemical binding]; other site 225937012901 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937012902 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 225937012903 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 225937012904 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937012905 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 225937012906 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 225937012907 active site 225937012908 dimer interface [polypeptide binding]; other site 225937012909 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 225937012910 Ligand Binding Site [chemical binding]; other site 225937012911 Molecular Tunnel; other site 225937012912 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 225937012913 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 225937012914 Uncharacterized conserved protein [Function unknown]; Region: COG1434 225937012915 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 225937012916 putative active site [active] 225937012917 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 225937012918 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 225937012919 NAD binding site [chemical binding]; other site 225937012920 substrate binding site [chemical binding]; other site 225937012921 homodimer interface [polypeptide binding]; other site 225937012922 active site 225937012923 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 225937012924 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225937012925 putative ADP-binding pocket [chemical binding]; other site 225937012926 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 225937012927 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 225937012928 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 225937012929 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 225937012930 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 225937012931 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 225937012932 glutaminase active site [active] 225937012933 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 225937012934 dimer interface [polypeptide binding]; other site 225937012935 active site 225937012936 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 225937012937 dimer interface [polypeptide binding]; other site 225937012938 active site 225937012939 Bacterial PH domain; Region: DUF304; pfam03703 225937012940 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 225937012941 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 225937012942 Mg++ binding site [ion binding]; other site 225937012943 putative catalytic motif [active] 225937012944 substrate binding site [chemical binding]; other site 225937012945 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 225937012946 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 225937012947 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 225937012948 calcium binding site 2 [ion binding]; other site 225937012949 active site 225937012950 catalytic triad [active] 225937012951 calcium binding site 1 [ion binding]; other site 225937012952 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 225937012953 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 225937012954 Bacterial Ig-like domain; Region: Big_5; pfam13205 225937012955 Bacterial Ig-like domain; Region: Big_5; pfam13205 225937012956 Bacterial Ig-like domain; Region: Big_5; pfam13205 225937012957 Bacterial Ig-like domain; Region: Big_5; pfam13205 225937012958 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225937012959 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225937012960 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937012961 ligand binding site [chemical binding]; other site 225937012962 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 225937012963 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 225937012964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 225937012965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 225937012966 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 225937012967 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 225937012968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225937012969 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 225937012970 ATP binding site [chemical binding]; other site 225937012971 Mg2+ binding site [ion binding]; other site 225937012972 G-X-G motif; other site 225937012973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 225937012974 active site 225937012975 dimerization interface [polypeptide binding]; other site 225937012976 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 225937012977 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225937012978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937012979 active site 225937012980 phosphorylation site [posttranslational modification] 225937012981 intermolecular recognition site; other site 225937012982 dimerization interface [polypeptide binding]; other site 225937012983 PAS domain S-box; Region: sensory_box; TIGR00229 225937012984 PAS domain S-box; Region: sensory_box; TIGR00229 225937012985 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 225937012986 putative active site [active] 225937012987 heme pocket [chemical binding]; other site 225937012988 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 225937012989 PAS domain; Region: PAS_9; pfam13426 225937012990 putative active site [active] 225937012991 heme pocket [chemical binding]; other site 225937012992 PAS domain; Region: PAS_9; pfam13426 225937012993 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937012994 putative CheW interface [polypeptide binding]; other site 225937012995 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 225937012996 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 225937012997 Radical SAM superfamily; Region: Radical_SAM; pfam04055 225937012998 FeS/SAM binding site; other site 225937012999 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 225937013000 Na binding site [ion binding]; other site 225937013001 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 225937013002 PAS domain; Region: PAS_9; pfam13426 225937013003 putative active site [active] 225937013004 heme pocket [chemical binding]; other site 225937013005 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 225937013006 PAS domain; Region: PAS_9; pfam13426 225937013007 putative active site [active] 225937013008 heme pocket [chemical binding]; other site 225937013009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225937013010 dimer interface [polypeptide binding]; other site 225937013011 putative CheW interface [polypeptide binding]; other site 225937013012 RNA polymerase sigma factor; Provisional; Region: PRK12537 225937013013 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225937013014 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 225937013015 DNA binding residues [nucleotide binding] 225937013016 Anti-sigma-K factor rskA; Region: RskA; pfam10099 225937013017 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 225937013018 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225937013019 PGAP1-like protein; Region: PGAP1; pfam07819 225937013020 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 225937013021 Integrase core domain; Region: rve; pfam00665 225937013022 Integrase core domain; Region: rve_3; pfam13683 225937013023 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 225937013024 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 225937013025 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 225937013026 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 225937013027 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 225937013028 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 225937013029 active site 225937013030 metal binding site [ion binding]; metal-binding site 225937013031 PhoD-like phosphatase; Region: PhoD; pfam09423 225937013032 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 225937013033 putative active site [active] 225937013034 putative metal binding site [ion binding]; other site 225937013035 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 225937013036 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 225937013037 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225937013038 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 225937013039 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 225937013040 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 225937013041 active site 225937013042 Int/Topo IB signature motif; other site 225937013043 DNA binding site [nucleotide binding] 225937013044 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 225937013045 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225937013046 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225937013047 active site 225937013048 phosphorylation site [posttranslational modification] 225937013049 intermolecular recognition site; other site 225937013050 dimerization interface [polypeptide binding]; other site 225937013051 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 225937013052 DNA binding residues [nucleotide binding] 225937013053 dimerization interface [polypeptide binding]; other site 225937013054 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225937013055 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 225937013056 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 225937013057 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 225937013058 classical (c) SDRs; Region: SDR_c; cd05233 225937013059 short chain dehydrogenase; Provisional; Region: PRK05650 225937013060 NAD(P) binding site [chemical binding]; other site 225937013061 active site 225937013062 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 225937013063 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 225937013064 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 225937013065 AAA domain; Region: AAA_30; pfam13604 225937013066 choline dehydrogenase; Validated; Region: PRK02106 225937013067 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 225937013068 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225937013069 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225937013070 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 225937013071 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937013072 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225937013073 ligand binding site [chemical binding]; other site 225937013074 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 225937013075 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 225937013076 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 225937013077 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225937013078 Zn2+ binding site [ion binding]; other site 225937013079 Mg2+ binding site [ion binding]; other site 225937013080 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 225937013081 Cytochrome P450; Region: p450; cl12078 225937013082 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 225937013083 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 225937013084 catalytic loop [active] 225937013085 iron binding site [ion binding]; other site 225937013086 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225937013087 Helix-turn-helix domain; Region: HTH_18; pfam12833 225937013088 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225937013089 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 225937013090 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 225937013091 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 225937013092 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 225937013093 active site 225937013094 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 225937013095 Fatty acid desaturase; Region: FA_desaturase; pfam00487 225937013096 putative di-iron ligands [ion binding]; other site 225937013097 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225937013098 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 225937013099 Galactose oxidase, central domain; Region: Kelch_3; cl02701 225937013100 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 225937013101 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 225937013102 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 225937013103 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 225937013104 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 225937013105 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 225937013106 active site 225937013107 DNA binding site [nucleotide binding] 225937013108 Int/Topo IB signature motif; other site 225937013109 ParB-like nuclease domain; Region: ParBc; cl02129 225937013110 plasmid-partitioning protein RepA; Provisional; Region: PRK13869 225937013111 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937013112 P-loop; other site 225937013113 Magnesium ion binding site [ion binding]; other site 225937013114 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937013115 Magnesium ion binding site [ion binding]; other site 225937013116 Initiator Replication protein; Region: Rep_3; pfam01051 225937013117 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 225937013118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225937013119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225937013120 metal binding site [ion binding]; metal-binding site 225937013121 active site 225937013122 I-site; other site 225937013123 PilZ domain; Region: PilZ; pfam07238 225937013124 Dynein heavy chain and region D6 of dynein motor; Region: Dynein_heavy; pfam03028 225937013125 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 225937013126 conjugal transfer protein TrbA; Provisional; Region: PRK13890 225937013127 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 225937013128 sequence-specific DNA binding site [nucleotide binding]; other site 225937013129 salt bridge; other site 225937013130 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 225937013131 dimer interface [polypeptide binding]; other site 225937013132 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 225937013133 ssDNA binding site [nucleotide binding]; other site 225937013134 tetramer (dimer of dimers) interface [polypeptide binding]; other site 225937013135 TrfA protein; Region: TrfA; pfam07042 225937013136 Replication initiator protein A; Region: RPA; cl17860 225937013137 Antirestriction protein; Region: Antirestrict; pfam03230 225937013138 conjugal transfer protein TrbA; Provisional; Region: PRK13890 225937013139 conjugal transfer protein TrbA; Provisional; Region: PRK13890 225937013140 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 225937013141 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937013142 P-loop; other site 225937013143 Magnesium ion binding site [ion binding]; other site 225937013144 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 225937013145 Magnesium ion binding site [ion binding]; other site 225937013146 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 225937013147 ParB-like nuclease domain; Region: ParB; smart00470 225937013148 KorB domain; Region: KorB; pfam08535 225937013149 KorB C-terminal beta-barrel domain; Region: KorB_C; pfam06613 225937013150 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 225937013151 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225937013152 active site 225937013153 Transcriptional activator TraM; Region: Activator-TraM; cl11943 225937013154 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 225937013155 P-loop; other site 225937013156 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 225937013157 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 225937013158 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 225937013159 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 225937013160 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 225937013161 Walker A motif; other site 225937013162 ATP binding site [chemical binding]; other site 225937013163 Walker B motif; other site 225937013164 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 225937013165 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 225937013166 DNA topoisomerase III; Provisional; Region: PRK07726 225937013167 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 225937013168 active site 225937013169 putative interdomain interaction site [polypeptide binding]; other site 225937013170 putative metal-binding site [ion binding]; other site 225937013171 putative nucleotide binding site [chemical binding]; other site 225937013172 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 225937013173 domain I; other site 225937013174 DNA binding groove [nucleotide binding] 225937013175 phosphate binding site [ion binding]; other site 225937013176 domain II; other site 225937013177 domain III; other site 225937013178 nucleotide binding site [chemical binding]; other site 225937013179 catalytic site [active] 225937013180 domain IV; other site 225937013181 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225937013182 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 225937013183 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 225937013184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 225937013185 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 225937013186 active site 225937013187 metal binding site [ion binding]; metal-binding site 225937013188 interdomain interaction site; other site 225937013189 D-glutamate deacylase; Validated; Region: PRK09061 225937013190 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 225937013191 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 225937013192 active site 225937013193 catalytic site [active] 225937013194 substrate binding site [chemical binding]; other site 225937013195 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 225937013196 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 225937013197 catalytic residues [active] 225937013198 catalytic nucleophile [active] 225937013199 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 225937013200 non-specific DNA binding site [nucleotide binding]; other site 225937013201 salt bridge; other site 225937013202 sequence-specific DNA binding site [nucleotide binding]; other site 225937013203 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225937013204 ligand binding site [chemical binding]; other site 225937013205 conjugal transfer protein TrbP; Provisional; Region: PRK13882 225937013206 TraX protein; Region: TraX; pfam05857 225937013207 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...; Region: LT_GEWL; cd00254 225937013208 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225937013209 catalytic residue [active] 225937013210 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 225937013211 entry exclusion lipoprotein TrbK; Region: TrbK_RP4; TIGR04359 225937013212 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 225937013213 conjugal transfer protein TrbI; Provisional; Region: PRK13881 225937013214 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 225937013215 conjugal transfer protein TrbH; Provisional; Region: PRK13883 225937013216 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 225937013217 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 225937013218 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 225937013219 VirB7 interaction site; other site 225937013220 conjugal transfer protein TrbF; Provisional; Region: PRK13887 225937013221 conjugal transfer protein TrbE; Provisional; Region: PRK13891 225937013222 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 225937013223 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 225937013224 Walker A motif; other site 225937013225 ATP binding site [chemical binding]; other site 225937013226 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225937013227 Walker B; other site 225937013228 D-loop; other site 225937013229 H-loop/switch region; other site 225937013230 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 225937013231 conjugal transfer protein TrbC; Provisional; Region: PRK13892 225937013232 conjugal transfer ATPase TrbB; Provisional; Region: PRK13894 225937013233 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 225937013234 ATP binding site [chemical binding]; other site 225937013235 Walker A motif; other site 225937013236 hexamer interface [polypeptide binding]; other site 225937013237 Walker B motif; other site