-- dump date 20140619_120000 -- class Genbank::misc_feature -- table misc_feature_note -- id note 572544000001 S4 domain; Region: S4_2; pfam13275 572544000002 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 572544000003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544000004 Walker A/P-loop; other site 572544000005 ATP binding site [chemical binding]; other site 572544000006 Q-loop/lid; other site 572544000007 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544000008 ABC transporter signature motif; other site 572544000009 Protein of unknown function (DUF721); Region: DUF721; cl02324 572544000010 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 572544000011 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544000012 Mg2+ binding site [ion binding]; other site 572544000013 G-X-G motif; other site 572544000014 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 572544000015 anchoring element; other site 572544000016 dimer interface [polypeptide binding]; other site 572544000017 ATP binding site [chemical binding]; other site 572544000018 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 572544000019 active site 572544000020 putative metal-binding site [ion binding]; other site 572544000021 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 572544000022 DNA gyrase subunit A; Validated; Region: PRK05560 572544000023 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 572544000024 CAP-like domain; other site 572544000025 active site 572544000026 primary dimer interface [polypeptide binding]; other site 572544000027 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572544000028 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572544000029 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572544000030 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572544000031 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572544000032 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 572544000033 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 572544000034 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572544000035 active site 572544000036 metal binding site [ion binding]; metal-binding site 572544000037 homotetramer interface [polypeptide binding]; other site 572544000038 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 572544000039 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 572544000040 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 572544000041 dimer interface [polypeptide binding]; other site 572544000042 motif 1; other site 572544000043 active site 572544000044 motif 2; other site 572544000045 motif 3; other site 572544000046 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 572544000047 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 572544000048 putative tRNA-binding site [nucleotide binding]; other site 572544000049 B3/4 domain; Region: B3_4; pfam03483 572544000050 tRNA synthetase B5 domain; Region: B5; smart00874 572544000051 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 572544000052 dimer interface [polypeptide binding]; other site 572544000053 motif 3; other site 572544000054 motif 2; other site 572544000055 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 572544000056 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 572544000057 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 572544000058 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 572544000059 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 572544000060 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 572544000061 putative active site [active] 572544000062 catalytic residue [active] 572544000063 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 572544000064 amphipathic channel; other site 572544000065 Asn-Pro-Ala signature motifs; other site 572544000066 glycerol kinase; Provisional; Region: glpK; PRK00047 572544000067 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 572544000068 N- and C-terminal domain interface [polypeptide binding]; other site 572544000069 active site 572544000070 MgATP binding site [chemical binding]; other site 572544000071 catalytic site [active] 572544000072 metal binding site [ion binding]; metal-binding site 572544000073 glycerol binding site [chemical binding]; other site 572544000074 homotetramer interface [polypeptide binding]; other site 572544000075 homodimer interface [polypeptide binding]; other site 572544000076 FBP binding site [chemical binding]; other site 572544000077 protein IIAGlc interface [polypeptide binding]; other site 572544000078 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 572544000079 SLBB domain; Region: SLBB; pfam10531 572544000080 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 572544000081 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 572544000082 FMN-binding domain; Region: FMN_bind; cl01081 572544000083 electron transport complex RsxE subunit; Provisional; Region: PRK12405 572544000084 Predicted NADH:ubiquinone oxidoreductase, subunit RnfA [Energy production and conversion]; Region: RnfA; COG4657 572544000085 Predicted NADH:ubiquinone oxidoreductase, subunit RnfB [Energy production and conversion]; Region: COG2878 572544000086 Putative Fe-S cluster; Region: FeS; cl17515 572544000087 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544000088 4Fe-4S binding domain; Region: Fer4; pfam00037 572544000089 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544000090 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 572544000091 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 572544000092 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 572544000093 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 572544000094 TPP-binding site [chemical binding]; other site 572544000095 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 572544000096 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 572544000097 PYR/PP interface [polypeptide binding]; other site 572544000098 TPP binding site [chemical binding]; other site 572544000099 dimer interface [polypeptide binding]; other site 572544000100 substrate binding site [chemical binding]; other site 572544000101 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572544000102 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 572544000103 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544000104 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 572544000105 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 572544000106 homotrimer interaction site [polypeptide binding]; other site 572544000107 putative active site [active] 572544000108 fructuronate transporter; Provisional; Region: PRK10034; cl15264 572544000109 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 572544000110 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 572544000111 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 572544000112 active site 572544000113 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 572544000114 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 572544000115 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 572544000116 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 572544000117 Phosphoglycerate kinase; Region: PGK; pfam00162 572544000118 substrate binding site [chemical binding]; other site 572544000119 hinge regions; other site 572544000120 ADP binding site [chemical binding]; other site 572544000121 catalytic site [active] 572544000122 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 572544000123 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572544000124 active site 572544000125 metal binding site [ion binding]; metal-binding site 572544000126 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572544000127 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 572544000128 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572544000129 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 572544000130 putative active site [active] 572544000131 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572544000132 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 572544000133 putative active site [active] 572544000134 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 572544000135 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 572544000136 putative metal binding site; other site 572544000137 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 572544000138 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 572544000139 N-acetyl-D-glucosamine binding site [chemical binding]; other site 572544000140 catalytic residue [active] 572544000141 Rubredoxin [Energy production and conversion]; Region: COG1773 572544000142 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 572544000143 iron binding site [ion binding]; other site 572544000144 Rubredoxin [Energy production and conversion]; Region: COG1773 572544000145 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 572544000146 iron binding site [ion binding]; other site 572544000147 Rubredoxin [Energy production and conversion]; Region: COG1773 572544000148 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 572544000149 iron binding site [ion binding]; other site 572544000150 Rubrerythrin [Energy production and conversion]; Region: COG1592 572544000151 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 572544000152 binuclear metal center [ion binding]; other site 572544000153 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 572544000154 iron binding site [ion binding]; other site 572544000155 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 572544000156 Ferritin-like domain; Region: Ferritin; pfam00210 572544000157 ferroxidase diiron center [ion binding]; other site 572544000158 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 572544000159 metal binding site 2 [ion binding]; metal-binding site 572544000160 putative DNA binding helix; other site 572544000161 metal binding site 1 [ion binding]; metal-binding site 572544000162 dimer interface [polypeptide binding]; other site 572544000163 structural Zn2+ binding site [ion binding]; other site 572544000164 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 572544000165 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572544000166 Coenzyme A binding pocket [chemical binding]; other site 572544000167 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 572544000168 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 572544000169 dimerization interface 3.5A [polypeptide binding]; other site 572544000170 active site 572544000171 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 572544000172 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 572544000173 Walker A/P-loop; other site 572544000174 ATP binding site [chemical binding]; other site 572544000175 Q-loop/lid; other site 572544000176 ABC transporter signature motif; other site 572544000177 Walker B; other site 572544000178 D-loop; other site 572544000179 H-loop/switch region; other site 572544000180 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 572544000181 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544000182 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 572544000183 ligand binding site [chemical binding]; other site 572544000184 flexible hinge region; other site 572544000185 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; cl17320 572544000186 Domain of unknown function (DUF336); Region: DUF336; pfam03928 572544000187 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 572544000188 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 572544000189 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 572544000190 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572544000191 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544000192 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572544000193 active site 572544000194 NAD binding site [chemical binding]; other site 572544000195 metal binding site [ion binding]; metal-binding site 572544000196 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572544000197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572544000198 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 572544000199 dimerization interface [polypeptide binding]; other site 572544000200 D-mannonate oxidoreductase; Provisional; Region: PRK08277 572544000201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572544000202 NAD(P) binding site [chemical binding]; other site 572544000203 active site 572544000204 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 572544000205 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 572544000206 FeS/SAM binding site; other site 572544000207 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 572544000208 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 572544000209 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572544000210 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544000211 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572544000212 active site 572544000213 NAD binding site [chemical binding]; other site 572544000214 metal binding site [ion binding]; metal-binding site 572544000215 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 572544000216 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 572544000217 transmembrane helices; other site 572544000218 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572544000219 Endonuclease I; Region: Endonuclease_1; pfam04231 572544000220 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 572544000221 non-specific DNA binding site [nucleotide binding]; other site 572544000222 salt bridge; other site 572544000223 sequence-specific DNA binding site [nucleotide binding]; other site 572544000224 Predicted transcriptional regulator [Transcription]; Region: COG2932 572544000225 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 572544000226 Catalytic site [active] 572544000227 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 572544000228 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 572544000229 active site 572544000230 DNA binding site [nucleotide binding] 572544000231 Transposase; Region: HTH_Tnp_1; cl17663 572544000232 putative transposase OrfB; Reviewed; Region: PHA02517 572544000233 HTH-like domain; Region: HTH_21; pfam13276 572544000234 Integrase core domain; Region: rve; pfam00665 572544000235 Integrase core domain; Region: rve_3; pfam13683 572544000236 hypothetical protein; Validated; Region: PRK06201 572544000237 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 572544000238 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 572544000239 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 572544000240 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 572544000241 2-keto-3-deoxygluconate permease; Provisional; Region: PRK12460 572544000242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 572544000243 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 572544000244 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 572544000245 Transcriptional regulators [Transcription]; Region: FadR; COG2186 572544000246 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544000247 DNA-binding site [nucleotide binding]; DNA binding site 572544000248 FCD domain; Region: FCD; pfam07729 572544000249 Predicted amidohydrolase [General function prediction only]; Region: COG0388 572544000250 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 572544000251 putative active site [active] 572544000252 catalytic triad [active] 572544000253 putative dimer interface [polypeptide binding]; other site 572544000254 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 572544000255 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572544000256 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 572544000257 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 572544000258 DctM-like transporters; Region: DctM; pfam06808 572544000259 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 572544000260 Transcriptional regulators [Transcription]; Region: GntR; COG1802 572544000261 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544000262 DNA-binding site [nucleotide binding]; DNA binding site 572544000263 FCD domain; Region: FCD; pfam07729 572544000264 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544000265 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 572544000266 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 572544000267 dimer interface [polypeptide binding]; other site 572544000268 PYR/PP interface [polypeptide binding]; other site 572544000269 TPP binding site [chemical binding]; other site 572544000270 substrate binding site [chemical binding]; other site 572544000271 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572544000272 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 572544000273 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 572544000274 TPP-binding site [chemical binding]; other site 572544000275 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 572544000276 Predicted transcriptional regulator [Transcription]; Region: COG1959 572544000277 Transcriptional regulator; Region: Rrf2; pfam02082 572544000278 Predicted transcriptional regulator [Transcription]; Region: COG2345 572544000279 EamA-like transporter family; Region: EamA; pfam00892 572544000280 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 572544000281 EamA-like transporter family; Region: EamA; pfam00892 572544000282 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 572544000283 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572544000284 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 572544000285 Predicted transcriptional regulators [Transcription]; Region: COG1733 572544000286 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 572544000287 dimerization interface [polypeptide binding]; other site 572544000288 putative DNA binding site [nucleotide binding]; other site 572544000289 putative Zn2+ binding site [ion binding]; other site 572544000290 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 572544000291 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 572544000292 metal binding site [ion binding]; metal-binding site 572544000293 dimer interface [polypeptide binding]; other site 572544000294 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 572544000295 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 572544000296 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 572544000297 active site 572544000298 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 572544000299 DctM-like transporters; Region: DctM; pfam06808 572544000300 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 572544000301 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572544000302 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 572544000303 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 572544000304 Transcriptional regulators [Transcription]; Region: GntR; COG1802 572544000305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544000306 DNA-binding site [nucleotide binding]; DNA binding site 572544000307 FCD domain; Region: FCD; pfam07729 572544000308 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 572544000309 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 572544000310 homodimer interface [polypeptide binding]; other site 572544000311 substrate-cofactor binding pocket; other site 572544000312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544000313 catalytic residue [active] 572544000314 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 572544000315 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 572544000316 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 572544000317 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544000318 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 572544000319 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 572544000320 dimer interface [polypeptide binding]; other site 572544000321 PYR/PP interface [polypeptide binding]; other site 572544000322 TPP binding site [chemical binding]; other site 572544000323 substrate binding site [chemical binding]; other site 572544000324 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 572544000325 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 572544000326 TPP-binding site [chemical binding]; other site 572544000327 putative dimer interface [polypeptide binding]; other site 572544000328 MoxR-like ATPases [General function prediction only]; Region: COG0714 572544000329 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 572544000330 Walker A motif; other site 572544000331 ATP binding site [chemical binding]; other site 572544000332 Walker B motif; other site 572544000333 arginine finger; other site 572544000334 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 572544000335 metal ion-dependent adhesion site (MIDAS); other site 572544000336 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572544000337 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572544000338 DNA binding site [nucleotide binding] 572544000339 domain linker motif; other site 572544000340 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 572544000341 dimerization interface [polypeptide binding]; other site 572544000342 ligand binding site [chemical binding]; other site 572544000343 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 572544000344 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 572544000345 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 572544000346 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 572544000347 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 572544000348 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 572544000349 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 572544000350 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 572544000351 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 572544000352 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 572544000353 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 572544000354 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 572544000355 Amidohydrolase; Region: Amidohydro_5; pfam13594 572544000356 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 572544000357 active site 572544000358 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 572544000359 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544000360 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544000361 hypothetical protein; Provisional; Region: PRK04334 572544000362 Amino acid synthesis; Region: AA_synth; pfam06684 572544000363 Predicted permeases [General function prediction only]; Region: COG0679 572544000364 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 572544000365 homotrimer interaction site [polypeptide binding]; other site 572544000366 putative active site [active] 572544000367 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 572544000368 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 572544000369 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 572544000370 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 572544000371 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 572544000372 phenylhydantoinase; Validated; Region: PRK08323 572544000373 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 572544000374 tetramer interface [polypeptide binding]; other site 572544000375 active site 572544000376 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 572544000377 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 572544000378 phosphate binding site [ion binding]; other site 572544000379 4Fe-4S binding domain; Region: Fer4; pfam00037 572544000380 4Fe-4S binding domain; Region: Fer4; pfam00037 572544000381 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 572544000382 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 572544000383 active site 572544000384 putative substrate binding pocket [chemical binding]; other site 572544000385 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 572544000386 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 572544000387 active site 572544000388 putative substrate binding pocket [chemical binding]; other site 572544000389 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 572544000390 peptidase; Reviewed; Region: PRK13004 572544000391 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 572544000392 putative metal binding site [ion binding]; other site 572544000393 putative dimer interface [polypeptide binding]; other site 572544000394 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 572544000395 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 572544000396 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572544000397 catalytic residue [active] 572544000398 xanthine permease; Region: pbuX; TIGR03173 572544000399 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 572544000400 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 572544000401 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 572544000402 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 572544000403 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 572544000404 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 572544000405 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 572544000406 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572544000407 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 572544000408 TM-ABC transporter signature motif; other site 572544000409 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572544000410 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 572544000411 TM-ABC transporter signature motif; other site 572544000412 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 572544000413 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 572544000414 Walker A/P-loop; other site 572544000415 ATP binding site [chemical binding]; other site 572544000416 Q-loop/lid; other site 572544000417 ABC transporter signature motif; other site 572544000418 Walker B; other site 572544000419 D-loop; other site 572544000420 H-loop/switch region; other site 572544000421 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 572544000422 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 572544000423 nucleoside/Zn binding site; other site 572544000424 dimer interface [polypeptide binding]; other site 572544000425 catalytic motif [active] 572544000426 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 572544000427 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 572544000428 putative ligand binding site [chemical binding]; other site 572544000429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 572544000430 YheO-like PAS domain; Region: PAS_6; pfam08348 572544000431 HTH domain; Region: HTH_22; pfam13309 572544000432 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 572544000433 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 572544000434 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 572544000435 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 572544000436 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 572544000437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572544000438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572544000439 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 572544000440 dimerization interface [polypeptide binding]; other site 572544000441 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 572544000442 Protein export membrane protein; Region: SecD_SecF; cl14618 572544000443 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 572544000444 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; cl17526 572544000445 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572544000446 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 572544000447 putative active site [active] 572544000448 recombinase A; Provisional; Region: recA; PRK09354 572544000449 recA bacterial DNA recombination protein; Region: RecA; cl17211 572544000450 recombination regulator RecX; Reviewed; Region: recX; PRK00117 572544000451 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 572544000452 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 572544000453 putative acyl-acceptor binding pocket; other site 572544000454 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 572544000455 Pyruvate formate lyase 1; Region: PFL1; cd01678 572544000456 coenzyme A binding site [chemical binding]; other site 572544000457 active site 572544000458 catalytic residues [active] 572544000459 glycine loop; other site 572544000460 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 572544000461 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 572544000462 FeS/SAM binding site; other site 572544000463 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 572544000464 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 572544000465 Sulfate transporter family; Region: Sulfate_transp; pfam00916 572544000466 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 572544000467 UGMP family protein; Validated; Region: PRK09604 572544000468 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 572544000469 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 572544000470 Septum formation initiator; Region: DivIC; cl17659 572544000471 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 572544000472 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 572544000473 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 572544000474 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 572544000475 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 572544000476 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 572544000477 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 572544000478 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 572544000479 hinge; other site 572544000480 active site 572544000481 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 572544000482 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 572544000483 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 572544000484 RNA polymerase factor sigma-70; Validated; Region: PRK08295 572544000485 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572544000486 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 572544000487 DNA binding residues [nucleotide binding] 572544000488 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 572544000489 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 572544000490 HIGH motif; other site 572544000491 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572544000492 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 572544000493 active site 572544000494 KMSKS motif; other site 572544000495 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 572544000496 tRNA binding surface [nucleotide binding]; other site 572544000497 gamma-glutamyl kinase; Provisional; Region: PRK05429 572544000498 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 572544000499 nucleotide binding site [chemical binding]; other site 572544000500 homotetrameric interface [polypeptide binding]; other site 572544000501 putative phosphate binding site [ion binding]; other site 572544000502 putative allosteric binding site; other site 572544000503 PUA domain; Region: PUA; pfam01472 572544000504 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 572544000505 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 572544000506 putative catalytic cysteine [active] 572544000507 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 572544000508 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 572544000509 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 572544000510 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 572544000511 putative homodimer interface [polypeptide binding]; other site 572544000512 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 572544000513 heterodimer interface [polypeptide binding]; other site 572544000514 homodimer interface [polypeptide binding]; other site 572544000515 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 572544000516 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 572544000517 23S rRNA interface [nucleotide binding]; other site 572544000518 L7/L12 interface [polypeptide binding]; other site 572544000519 putative thiostrepton binding site; other site 572544000520 L25 interface [polypeptide binding]; other site 572544000521 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 572544000522 mRNA/rRNA interface [nucleotide binding]; other site 572544000523 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 572544000524 23S rRNA interface [nucleotide binding]; other site 572544000525 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 572544000526 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 572544000527 peripheral dimer interface [polypeptide binding]; other site 572544000528 core dimer interface [polypeptide binding]; other site 572544000529 L10 interface [polypeptide binding]; other site 572544000530 L11 interface [polypeptide binding]; other site 572544000531 putative EF-Tu interaction site [polypeptide binding]; other site 572544000532 putative EF-G interaction site [polypeptide binding]; other site 572544000533 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 572544000534 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 572544000535 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 572544000536 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 572544000537 RPB1 interaction site [polypeptide binding]; other site 572544000538 RPB10 interaction site [polypeptide binding]; other site 572544000539 RPB11 interaction site [polypeptide binding]; other site 572544000540 RPB3 interaction site [polypeptide binding]; other site 572544000541 RPB12 interaction site [polypeptide binding]; other site 572544000542 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 572544000543 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 572544000544 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 572544000545 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 572544000546 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 572544000547 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 572544000548 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 572544000549 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 572544000550 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 572544000551 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 572544000552 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 572544000553 DNA binding site [nucleotide binding] 572544000554 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 572544000555 hypothetical protein; Provisional; Region: PRK11820 572544000556 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 572544000557 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 572544000558 Domain of unknown function (DUF370); Region: DUF370; cl00898 572544000559 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 572544000560 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 572544000561 catalytic site [active] 572544000562 G-X2-G-X-G-K; other site 572544000563 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 572544000564 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 572544000565 ApbE family; Region: ApbE; pfam02424 572544000566 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 572544000567 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 572544000568 DNA primase, catalytic core; Region: dnaG; TIGR01391 572544000569 CHC2 zinc finger; Region: zf-CHC2; cl17510 572544000570 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 572544000571 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 572544000572 active site 572544000573 metal binding site [ion binding]; metal-binding site 572544000574 interdomain interaction site; other site 572544000575 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 572544000576 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 572544000577 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 572544000578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572544000579 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 572544000580 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 572544000581 DNA binding residues [nucleotide binding] 572544000582 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 572544000583 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572544000584 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 572544000585 DNA binding residues [nucleotide binding] 572544000586 Uncharacterized conserved protein [Function unknown]; Region: COG0327 572544000587 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 572544000588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 572544000589 Uncharacterized conserved protein [Function unknown]; Region: COG0327 572544000590 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 572544000591 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 572544000592 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 572544000593 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 572544000594 Catalytic site [active] 572544000595 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 572544000596 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 572544000597 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572544000598 Coenzyme A binding pocket [chemical binding]; other site 572544000599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 572544000600 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 572544000601 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 572544000602 tetramer interface [polypeptide binding]; other site 572544000603 active site 572544000604 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 572544000605 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 572544000606 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 572544000607 active site 572544000608 substrate binding site [chemical binding]; other site 572544000609 metal binding site [ion binding]; metal-binding site 572544000610 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 572544000611 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544000612 S-adenosylmethionine binding site [chemical binding]; other site 572544000613 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 572544000614 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 572544000615 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 572544000616 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 572544000617 ATP synthase, F0 subunit b; Region: ATP_synt_b; TIGR01144 572544000618 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 572544000619 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 572544000620 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 572544000621 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 572544000622 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 572544000623 beta subunit interaction interface [polypeptide binding]; other site 572544000624 Walker A motif; other site 572544000625 ATP binding site [chemical binding]; other site 572544000626 Walker B motif; other site 572544000627 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 572544000628 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 572544000629 core domain interface [polypeptide binding]; other site 572544000630 delta subunit interface [polypeptide binding]; other site 572544000631 epsilon subunit interface [polypeptide binding]; other site 572544000632 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 572544000633 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 572544000634 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 572544000635 alpha subunit interaction interface [polypeptide binding]; other site 572544000636 Walker A motif; other site 572544000637 ATP binding site [chemical binding]; other site 572544000638 Walker B motif; other site 572544000639 inhibitor binding site; inhibition site 572544000640 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 572544000641 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 572544000642 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 572544000643 gamma subunit interface [polypeptide binding]; other site 572544000644 epsilon subunit interface [polypeptide binding]; other site 572544000645 LBP interface [polypeptide binding]; other site 572544000646 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 572544000647 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 572544000648 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 572544000649 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 572544000650 ligand binding site [chemical binding]; other site 572544000651 PAS fold; Region: PAS_4; pfam08448 572544000652 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 572544000653 putative active site [active] 572544000654 heme pocket [chemical binding]; other site 572544000655 PAS domain S-box; Region: sensory_box; TIGR00229 572544000656 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544000657 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544000658 metal binding site [ion binding]; metal-binding site 572544000659 active site 572544000660 I-site; other site 572544000661 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 572544000662 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 572544000663 CoA-binding site [chemical binding]; other site 572544000664 ATP-binding [chemical binding]; other site 572544000665 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 572544000666 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 572544000667 Peptidase family U32; Region: Peptidase_U32; pfam01136 572544000668 metal binding site [ion binding]; metal-binding site 572544000669 Collagenase; Region: DUF3656; pfam12392 572544000670 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 572544000671 tetramer interfaces [polypeptide binding]; other site 572544000672 binuclear metal-binding site [ion binding]; other site 572544000673 competence damage-inducible protein A; Provisional; Region: PRK00549 572544000674 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 572544000675 putative MPT binding site; other site 572544000676 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 572544000677 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 572544000678 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 572544000679 non-specific DNA binding site [nucleotide binding]; other site 572544000680 salt bridge; other site 572544000681 sequence-specific DNA binding site [nucleotide binding]; other site 572544000682 Cupin domain; Region: Cupin_2; pfam07883 572544000683 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 572544000684 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 572544000685 active site 572544000686 motif I; other site 572544000687 motif II; other site 572544000688 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 572544000689 DAK2 domain; Region: Dak2; pfam02734 572544000690 EDD domain protein, DegV family; Region: DegV; TIGR00762 572544000691 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 572544000692 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 572544000693 active site 572544000694 phosphorylation site [posttranslational modification] 572544000695 FOG: CBS domain [General function prediction only]; Region: COG0517 572544000696 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 572544000697 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 572544000698 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 572544000699 transmembrane helices; other site 572544000700 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 572544000701 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 572544000702 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 572544000703 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 572544000704 putative hydratase; Provisional; Region: PRK11413 572544000705 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 572544000706 substrate binding site [chemical binding]; other site 572544000707 ligand binding site [chemical binding]; other site 572544000708 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 572544000709 substrate binding site [chemical binding]; other site 572544000710 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 572544000711 isocitrate dehydrogenase; Validated; Region: PRK06451 572544000712 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 572544000713 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 572544000714 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 572544000715 active site 572544000716 Transcriptional regulators [Transcription]; Region: FadR; COG2186 572544000717 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544000718 DNA-binding site [nucleotide binding]; DNA binding site 572544000719 FCD domain; Region: FCD; pfam07729 572544000720 biotin synthase; Region: bioB; TIGR00433 572544000721 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 572544000722 FeS/SAM binding site; other site 572544000723 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 572544000724 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 572544000725 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544000726 S-adenosylmethionine binding site [chemical binding]; other site 572544000727 GTP-binding protein Der; Reviewed; Region: PRK00093 572544000728 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 572544000729 G1 box; other site 572544000730 GTP/Mg2+ binding site [chemical binding]; other site 572544000731 Switch I region; other site 572544000732 G2 box; other site 572544000733 Switch II region; other site 572544000734 G3 box; other site 572544000735 G4 box; other site 572544000736 G5 box; other site 572544000737 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 572544000738 G1 box; other site 572544000739 GTP/Mg2+ binding site [chemical binding]; other site 572544000740 Switch I region; other site 572544000741 G2 box; other site 572544000742 G3 box; other site 572544000743 Switch II region; other site 572544000744 G4 box; other site 572544000745 G5 box; other site 572544000746 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 572544000747 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 572544000748 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 572544000749 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 572544000750 putative dimer interface [polypeptide binding]; other site 572544000751 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 572544000752 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 572544000753 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 572544000754 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 572544000755 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 572544000756 DHHA2 domain; Region: DHHA2; pfam02833 572544000757 Transcriptional regulators [Transcription]; Region: MarR; COG1846 572544000758 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 572544000759 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 572544000760 nucleotide binding pocket [chemical binding]; other site 572544000761 K-X-D-G motif; other site 572544000762 catalytic site [active] 572544000763 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 572544000764 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 572544000765 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 572544000766 Dimer interface [polypeptide binding]; other site 572544000767 BRCT sequence motif; other site 572544000768 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544000769 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 572544000770 ligand binding site [chemical binding]; other site 572544000771 flexible hinge region; other site 572544000772 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 572544000773 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 572544000774 ATP binding site [chemical binding]; other site 572544000775 putative Mg++ binding site [ion binding]; other site 572544000776 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 572544000777 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 572544000778 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 572544000779 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 572544000780 active site 572544000781 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 572544000782 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 572544000783 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 572544000784 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 572544000785 NADP binding site [chemical binding]; other site 572544000786 homopentamer interface [polypeptide binding]; other site 572544000787 substrate binding site [chemical binding]; other site 572544000788 active site 572544000789 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 572544000790 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 572544000791 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 572544000792 Walker A motif; other site 572544000793 ATP binding site [chemical binding]; other site 572544000794 Walker B motif; other site 572544000795 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 572544000796 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572544000797 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572544000798 coproporphyrinogen dehydrogenase HemZ; Region: rSAM_HemZ; TIGR03994 572544000799 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 572544000800 FeS/SAM binding site; other site 572544000801 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 572544000802 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 572544000803 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 572544000804 dimerization interface [polypeptide binding]; other site 572544000805 domain crossover interface; other site 572544000806 redox-dependent activation switch; other site 572544000807 Clathrin light chain; Region: Clathrin_lg_ch; pfam01086 572544000808 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 572544000809 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 572544000810 putative transporter; Provisional; Region: PRK10484 572544000811 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 572544000812 Na binding site [ion binding]; other site 572544000813 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 572544000814 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 572544000815 active site 572544000816 substrate binding site [chemical binding]; other site 572544000817 metal binding site [ion binding]; metal-binding site 572544000818 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 572544000819 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 572544000820 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 572544000821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544000822 dimer interface [polypeptide binding]; other site 572544000823 conserved gate region; other site 572544000824 putative PBP binding loops; other site 572544000825 ABC-ATPase subunit interface; other site 572544000826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544000827 dimer interface [polypeptide binding]; other site 572544000828 conserved gate region; other site 572544000829 putative PBP binding loops; other site 572544000830 ABC-ATPase subunit interface; other site 572544000831 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 572544000832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544000833 Walker A/P-loop; other site 572544000834 ATP binding site [chemical binding]; other site 572544000835 Q-loop/lid; other site 572544000836 ABC transporter signature motif; other site 572544000837 Walker B; other site 572544000838 D-loop; other site 572544000839 H-loop/switch region; other site 572544000840 TOBE domain; Region: TOBE_2; pfam08402 572544000841 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 572544000842 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 572544000843 FeS/SAM binding site; other site 572544000844 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 572544000845 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572544000846 catalytic residue [active] 572544000847 Protein of unknown function (DUF552); Region: DUF552; cl00775 572544000848 Nucleoside recognition; Region: Gate; pfam07670 572544000849 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 572544000850 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 572544000851 Ligand Binding Site [chemical binding]; other site 572544000852 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 572544000853 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572544000854 Coenzyme A binding pocket [chemical binding]; other site 572544000855 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 572544000856 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 572544000857 Ligand Binding Site [chemical binding]; other site 572544000858 TIGR00269 family protein; Region: TIGR00269 572544000859 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 572544000860 Ligand Binding Site [chemical binding]; other site 572544000861 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544000862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544000863 active site 572544000864 phosphorylation site [posttranslational modification] 572544000865 intermolecular recognition site; other site 572544000866 dimerization interface [polypeptide binding]; other site 572544000867 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 572544000868 DNA binding site [nucleotide binding] 572544000869 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544000870 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 572544000871 dimer interface [polypeptide binding]; other site 572544000872 phosphorylation site [posttranslational modification] 572544000873 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544000874 ATP binding site [chemical binding]; other site 572544000875 Mg2+ binding site [ion binding]; other site 572544000876 G-X-G motif; other site 572544000877 Response regulator receiver domain; Region: Response_reg; pfam00072 572544000878 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544000879 active site 572544000880 phosphorylation site [posttranslational modification] 572544000881 intermolecular recognition site; other site 572544000882 dimerization interface [polypeptide binding]; other site 572544000883 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 572544000884 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544000885 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544000886 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544000887 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544000888 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 572544000889 Coenzyme A transferase; Region: CoA_trans; smart00882 572544000890 Coenzyme A transferase; Region: CoA_trans; cl17247 572544000891 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 572544000892 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 572544000893 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 572544000894 NAD(P) binding site [chemical binding]; other site 572544000895 homotetramer interface [polypeptide binding]; other site 572544000896 homodimer interface [polypeptide binding]; other site 572544000897 active site 572544000898 putative acyltransferase; Provisional; Region: PRK05790 572544000899 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 572544000900 dimer interface [polypeptide binding]; other site 572544000901 active site 572544000902 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 572544000903 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 572544000904 substrate binding site [chemical binding]; other site 572544000905 oxyanion hole (OAH) forming residues; other site 572544000906 trimer interface [polypeptide binding]; other site 572544000907 (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 572544000908 dimer interaction site [polypeptide binding]; other site 572544000909 substrate-binding tunnel; other site 572544000910 active site 572544000911 catalytic site [active] 572544000912 substrate binding site [chemical binding]; other site 572544000913 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 572544000914 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 572544000915 FAD binding site [chemical binding]; other site 572544000916 homotetramer interface [polypeptide binding]; other site 572544000917 substrate binding pocket [chemical binding]; other site 572544000918 catalytic base [active] 572544000919 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 572544000920 Ligand binding site [chemical binding]; other site 572544000921 Electron transfer flavoprotein domain; Region: ETF; pfam01012 572544000922 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 572544000923 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 572544000924 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 572544000925 Cache domain; Region: Cache_1; pfam02743 572544000926 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544000927 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 572544000928 dimer interface [polypeptide binding]; other site 572544000929 phosphorylation site [posttranslational modification] 572544000930 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544000931 ATP binding site [chemical binding]; other site 572544000932 Mg2+ binding site [ion binding]; other site 572544000933 G-X-G motif; other site 572544000934 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 572544000935 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544000936 active site 572544000937 phosphorylation site [posttranslational modification] 572544000938 intermolecular recognition site; other site 572544000939 dimerization interface [polypeptide binding]; other site 572544000940 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544000941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544000942 active site 572544000943 phosphorylation site [posttranslational modification] 572544000944 intermolecular recognition site; other site 572544000945 dimerization interface [polypeptide binding]; other site 572544000946 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 572544000947 DNA binding site [nucleotide binding] 572544000948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 572544000949 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 572544000950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 572544000951 putative hydratase; Provisional; Region: PRK11413 572544000952 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 572544000953 substrate binding site [chemical binding]; other site 572544000954 ligand binding site [chemical binding]; other site 572544000955 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 572544000956 substrate binding site [chemical binding]; other site 572544000957 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 572544000958 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 572544000959 Transcriptional regulators [Transcription]; Region: GntR; COG1802 572544000960 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544000961 DNA-binding site [nucleotide binding]; DNA binding site 572544000962 FCD domain; Region: FCD; pfam07729 572544000963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 572544000964 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 572544000965 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 572544000966 oxaloacetate decarboxylase; Provisional; Region: PRK12331 572544000967 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 572544000968 active site 572544000969 catalytic residues [active] 572544000970 metal binding site [ion binding]; metal-binding site 572544000971 homodimer binding site [polypeptide binding]; other site 572544000972 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 572544000973 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 572544000974 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 572544000975 Coenzyme A transferase; Region: CoA_trans; cl17247 572544000976 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 572544000977 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 572544000978 carboxyltransferase (CT) interaction site; other site 572544000979 biotinylation site [posttranslational modification]; other site 572544000980 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 572544000981 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 572544000982 Carbon starvation protein CstA; Region: CstA; pfam02554 572544000983 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 572544000984 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 572544000985 Transposase; Region: HTH_Tnp_1; cl17663 572544000986 putative transposase OrfB; Reviewed; Region: PHA02517 572544000987 HTH-like domain; Region: HTH_21; pfam13276 572544000988 Integrase core domain; Region: rve; pfam00665 572544000989 Integrase core domain; Region: rve_3; pfam13683 572544000990 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 572544000991 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 572544000992 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 572544000993 active site 572544000994 catalytic tetrad [active] 572544000995 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 572544000996 ligand binding site [chemical binding]; other site 572544000997 flexible hinge region; other site 572544000998 FeoA domain; Region: FeoA; cl00838 572544000999 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 572544001000 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 572544001001 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 572544001002 G1 box; other site 572544001003 GTP/Mg2+ binding site [chemical binding]; other site 572544001004 Switch I region; other site 572544001005 G2 box; other site 572544001006 G3 box; other site 572544001007 Switch II region; other site 572544001008 G4 box; other site 572544001009 G5 box; other site 572544001010 Nucleoside recognition; Region: Gate; pfam07670 572544001011 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 572544001012 Nucleoside recognition; Region: Gate; pfam07670 572544001013 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 572544001014 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 572544001015 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 572544001016 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 572544001017 4Fe-4S binding domain; Region: Fer4; cl02805 572544001018 PrpF protein; Region: PrpF; pfam04303 572544001019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 572544001020 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 572544001021 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 572544001022 Cache domain; Region: Cache_1; pfam02743 572544001023 PAS domain S-box; Region: sensory_box; TIGR00229 572544001024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544001025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544001026 ATP binding site [chemical binding]; other site 572544001027 Mg2+ binding site [ion binding]; other site 572544001028 G-X-G motif; other site 572544001029 Response regulator receiver domain; Region: Response_reg; pfam00072 572544001030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544001031 active site 572544001032 phosphorylation site [posttranslational modification] 572544001033 intermolecular recognition site; other site 572544001034 dimerization interface [polypeptide binding]; other site 572544001035 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 572544001036 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 572544001037 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 572544001038 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572544001039 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572544001040 DNA binding site [nucleotide binding] 572544001041 domain linker motif; other site 572544001042 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 572544001043 dimerization interface [polypeptide binding]; other site 572544001044 ligand binding site [chemical binding]; other site 572544001045 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 572544001046 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 572544001047 substrate binding site [chemical binding]; other site 572544001048 dimer interface [polypeptide binding]; other site 572544001049 ATP binding site [chemical binding]; other site 572544001050 D-ribose pyranase; Provisional; Region: PRK11797 572544001051 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 572544001052 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 572544001053 Walker A/P-loop; other site 572544001054 ATP binding site [chemical binding]; other site 572544001055 Q-loop/lid; other site 572544001056 ABC transporter signature motif; other site 572544001057 Walker B; other site 572544001058 D-loop; other site 572544001059 H-loop/switch region; other site 572544001060 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 572544001061 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572544001062 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 572544001063 TM-ABC transporter signature motif; other site 572544001064 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 572544001065 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 572544001066 ligand binding site [chemical binding]; other site 572544001067 dimerization interface [polypeptide binding]; other site 572544001068 NAD-dependent deacetylase; Provisional; Region: PRK00481 572544001069 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 572544001070 NAD+ binding site [chemical binding]; other site 572544001071 substrate binding site [chemical binding]; other site 572544001072 Zn binding site [ion binding]; other site 572544001073 Uncharacterized conserved protein (DUF2196); Region: DUF2196; pfam09962 572544001074 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 572544001075 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544001076 dimer interface [polypeptide binding]; other site 572544001077 conserved gate region; other site 572544001078 putative PBP binding loops; other site 572544001079 ABC-ATPase subunit interface; other site 572544001080 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572544001081 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 572544001082 Walker A/P-loop; other site 572544001083 ATP binding site [chemical binding]; other site 572544001084 Q-loop/lid; other site 572544001085 ABC transporter signature motif; other site 572544001086 Walker B; other site 572544001087 D-loop; other site 572544001088 H-loop/switch region; other site 572544001089 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572544001090 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 572544001091 substrate binding pocket [chemical binding]; other site 572544001092 membrane-bound complex binding site; other site 572544001093 hinge residues; other site 572544001094 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 572544001095 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572544001096 substrate binding pocket [chemical binding]; other site 572544001097 membrane-bound complex binding site; other site 572544001098 hinge residues; other site 572544001099 argininosuccinate lyase; Provisional; Region: PRK00855 572544001100 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 572544001101 active sites [active] 572544001102 tetramer interface [polypeptide binding]; other site 572544001103 argininosuccinate synthase; Provisional; Region: PRK13820 572544001104 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 572544001105 ANP binding site [chemical binding]; other site 572544001106 Substrate Binding Site II [chemical binding]; other site 572544001107 Substrate Binding Site I [chemical binding]; other site 572544001108 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572544001109 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_5; cd13145 572544001110 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 572544001111 active site 572544001112 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 572544001113 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544001114 S-adenosylmethionine binding site [chemical binding]; other site 572544001115 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 572544001116 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 572544001117 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572544001118 peptide chain release factor 2; Validated; Region: prfB; PRK00578 572544001119 PCRF domain; Region: PCRF; pfam03462 572544001120 RF-1 domain; Region: RF-1; pfam00472 572544001121 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 572544001122 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 572544001123 active site 572544001124 HIGH motif; other site 572544001125 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 572544001126 active site 572544001127 KMSKS motif; other site 572544001128 EamA-like transporter family; Region: EamA; pfam00892 572544001129 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 572544001130 EamA-like transporter family; Region: EamA; pfam00892 572544001131 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 572544001132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544001133 active site 572544001134 phosphorylation site [posttranslational modification] 572544001135 intermolecular recognition site; other site 572544001136 dimerization interface [polypeptide binding]; other site 572544001137 HTH domain; Region: HTH_11; cl17392 572544001138 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 572544001139 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 572544001140 NADP binding site [chemical binding]; other site 572544001141 dimer interface [polypeptide binding]; other site 572544001142 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544001143 metal binding site [ion binding]; metal-binding site 572544001144 active site 572544001145 I-site; other site 572544001146 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 572544001147 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 572544001148 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 572544001149 FMN binding site [chemical binding]; other site 572544001150 active site 572544001151 catalytic residues [active] 572544001152 substrate binding site [chemical binding]; other site 572544001153 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 572544001154 MutS domain I; Region: MutS_I; pfam01624 572544001155 MutS domain II; Region: MutS_II; pfam05188 572544001156 MutS domain III; Region: MutS_III; pfam05192 572544001157 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 572544001158 Walker A/P-loop; other site 572544001159 ATP binding site [chemical binding]; other site 572544001160 Q-loop/lid; other site 572544001161 ABC transporter signature motif; other site 572544001162 Walker B; other site 572544001163 D-loop; other site 572544001164 H-loop/switch region; other site 572544001165 OstA-like protein; Region: OstA; cl00844 572544001166 OstA-like protein; Region: OstA; cl00844 572544001167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 572544001168 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 572544001169 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 572544001170 Walker A/P-loop; other site 572544001171 ATP binding site [chemical binding]; other site 572544001172 Q-loop/lid; other site 572544001173 ABC transporter signature motif; other site 572544001174 Walker B; other site 572544001175 D-loop; other site 572544001176 H-loop/switch region; other site 572544001177 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 572544001178 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 572544001179 motif 1; other site 572544001180 active site 572544001181 motif 2; other site 572544001182 motif 3; other site 572544001183 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 572544001184 DHHA1 domain; Region: DHHA1; pfam02272 572544001185 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 572544001186 protein-export membrane protein SecD; Region: secD; TIGR01129 572544001187 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 572544001188 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 572544001189 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 572544001190 Protein export membrane protein; Region: SecD_SecF; pfam02355 572544001191 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 572544001192 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 572544001193 active site 572544001194 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572544001195 dimer interface [polypeptide binding]; other site 572544001196 substrate binding site [chemical binding]; other site 572544001197 catalytic residues [active] 572544001198 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 572544001199 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 572544001200 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 572544001201 putative RNA binding site [nucleotide binding]; other site 572544001202 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544001203 S-adenosylmethionine binding site [chemical binding]; other site 572544001204 Colicin V production protein; Region: Colicin_V; pfam02674 572544001205 Predicted permeases [General function prediction only]; Region: COG0795 572544001206 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 572544001207 Predicted permeases [General function prediction only]; Region: COG0795 572544001208 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 572544001209 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 572544001210 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 572544001211 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 572544001212 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 572544001213 trimer interface [polypeptide binding]; other site 572544001214 active site 572544001215 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 572544001216 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 572544001217 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 572544001218 RNA binding surface [nucleotide binding]; other site 572544001219 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 572544001220 active site 572544001221 KTSC domain; Region: KTSC; pfam13619 572544001222 Chain length determinant protein; Region: Wzz; cl15801 572544001223 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 572544001224 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 572544001225 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 572544001226 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 572544001227 active site 572544001228 Outer membrane efflux protein; Region: OEP; pfam02321 572544001229 Outer membrane efflux protein; Region: OEP; pfam02321 572544001230 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572544001231 HlyD family secretion protein; Region: HlyD_3; pfam13437 572544001232 GxxExxY protein; Region: GxxExxY; TIGR04256 572544001233 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572544001234 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 572544001235 FtsX-like permease family; Region: FtsX; pfam02687 572544001236 Bacterial sugar transferase; Region: Bac_transf; pfam02397 572544001237 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 572544001238 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544001239 putative ADP-binding pocket [chemical binding]; other site 572544001240 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 572544001241 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 572544001242 active site 572544001243 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 572544001244 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544001245 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 572544001246 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544001247 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 572544001248 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 572544001249 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 572544001250 trimer interface [polypeptide binding]; other site 572544001251 active site 572544001252 substrate binding site [chemical binding]; other site 572544001253 CoA binding site [chemical binding]; other site 572544001254 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 572544001255 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 572544001256 active site 572544001257 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 572544001258 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572544001259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572544001260 NAD(P) binding site [chemical binding]; other site 572544001261 active site 572544001262 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 572544001263 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 572544001264 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 572544001265 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 572544001266 hypothetical protein; Reviewed; Region: PRK12275 572544001267 four helix bundle protein; Region: TIGR02436 572544001268 Predicted integral membrane protein [Function unknown]; Region: COG5652 572544001269 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 572544001270 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 572544001271 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 572544001272 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544001273 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572544001274 active site 572544001275 NAD binding site [chemical binding]; other site 572544001276 metal binding site [ion binding]; metal-binding site 572544001277 methionine sulfoxide reductase B; Provisional; Region: PRK00222 572544001278 SelR domain; Region: SelR; pfam01641 572544001279 recombination protein RecR; Reviewed; Region: recR; PRK00076 572544001280 RecR protein; Region: RecR; pfam02132 572544001281 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 572544001282 putative active site [active] 572544001283 putative metal-binding site [ion binding]; other site 572544001284 tetramer interface [polypeptide binding]; other site 572544001285 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 572544001286 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 572544001287 hexamer interface [polypeptide binding]; other site 572544001288 ligand binding site [chemical binding]; other site 572544001289 putative active site [active] 572544001290 NAD(P) binding site [chemical binding]; other site 572544001291 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 572544001292 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 572544001293 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 572544001294 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 572544001295 Amino acid permease; Region: AA_permease; pfam00324 572544001296 glutamate racemase; Provisional; Region: PRK00865 572544001297 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 572544001298 RuvA N terminal domain; Region: RuvA_N; pfam01330 572544001299 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 572544001300 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 572544001301 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 572544001302 Substrate binding site; other site 572544001303 Cupin domain; Region: Cupin_2; cl17218 572544001304 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 572544001305 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 572544001306 putative active site [active] 572544001307 PhoH-like protein; Region: PhoH; pfam02562 572544001308 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 572544001309 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 572544001310 putative ligand binding site [chemical binding]; other site 572544001311 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572544001312 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 572544001313 TM-ABC transporter signature motif; other site 572544001314 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 572544001315 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 572544001316 TM-ABC transporter signature motif; other site 572544001317 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 572544001318 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 572544001319 Walker A/P-loop; other site 572544001320 ATP binding site [chemical binding]; other site 572544001321 Q-loop/lid; other site 572544001322 ABC transporter signature motif; other site 572544001323 Walker B; other site 572544001324 D-loop; other site 572544001325 H-loop/switch region; other site 572544001326 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 572544001327 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 572544001328 Walker A/P-loop; other site 572544001329 ATP binding site [chemical binding]; other site 572544001330 Q-loop/lid; other site 572544001331 ABC transporter signature motif; other site 572544001332 Walker B; other site 572544001333 D-loop; other site 572544001334 H-loop/switch region; other site 572544001335 Preprotein translocase SecG subunit; Region: SecG; cl09123 572544001336 recombination factor protein RarA; Reviewed; Region: PRK13342 572544001337 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 572544001338 Walker A motif; other site 572544001339 ATP binding site [chemical binding]; other site 572544001340 Walker B motif; other site 572544001341 arginine finger; other site 572544001342 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 572544001343 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 572544001344 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 572544001345 dimer interface [polypeptide binding]; other site 572544001346 motif 1; other site 572544001347 active site 572544001348 motif 2; other site 572544001349 motif 3; other site 572544001350 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 572544001351 anticodon binding site; other site 572544001352 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 572544001353 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 572544001354 dimer interface [polypeptide binding]; other site 572544001355 anticodon binding site; other site 572544001356 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 572544001357 homodimer interface [polypeptide binding]; other site 572544001358 motif 1; other site 572544001359 active site 572544001360 motif 2; other site 572544001361 GAD domain; Region: GAD; pfam02938 572544001362 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 572544001363 active site 572544001364 motif 3; other site 572544001365 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 572544001366 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 572544001367 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 572544001368 active site 572544001369 HIGH motif; other site 572544001370 KMSK motif region; other site 572544001371 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 572544001372 tRNA binding surface [nucleotide binding]; other site 572544001373 anticodon binding site; other site 572544001374 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 572544001375 AAA domain; Region: AAA_33; pfam13671 572544001376 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 572544001377 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 572544001378 GIY-YIG motif/motif A; other site 572544001379 active site 572544001380 catalytic site [active] 572544001381 putative DNA binding site [nucleotide binding]; other site 572544001382 metal binding site [ion binding]; metal-binding site 572544001383 UvrB/uvrC motif; Region: UVR; pfam02151 572544001384 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 572544001385 Response regulator receiver domain; Region: Response_reg; pfam00072 572544001386 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544001387 active site 572544001388 phosphorylation site [posttranslational modification] 572544001389 intermolecular recognition site; other site 572544001390 dimerization interface [polypeptide binding]; other site 572544001391 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 572544001392 GAF domain; Region: GAF_3; pfam13492 572544001393 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 572544001394 purine nucleoside phosphorylase; Provisional; Region: PRK08202 572544001395 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 572544001396 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 572544001397 Walker A/P-loop; other site 572544001398 ATP binding site [chemical binding]; other site 572544001399 Q-loop/lid; other site 572544001400 ABC transporter signature motif; other site 572544001401 Walker B; other site 572544001402 D-loop; other site 572544001403 H-loop/switch region; other site 572544001404 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 572544001405 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572544001406 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 572544001407 TM-ABC transporter signature motif; other site 572544001408 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572544001409 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 572544001410 TM-ABC transporter signature motif; other site 572544001411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544001412 dimer interface [polypeptide binding]; other site 572544001413 conserved gate region; other site 572544001414 putative PBP binding loops; other site 572544001415 ABC-ATPase subunit interface; other site 572544001416 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572544001417 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 572544001418 substrate binding pocket [chemical binding]; other site 572544001419 membrane-bound complex binding site; other site 572544001420 hinge residues; other site 572544001421 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 572544001422 putative substrate binding site 2 [chemical binding]; other site 572544001423 putative substrate binding site 1 [chemical binding]; other site 572544001424 Na binding site 1 [ion binding]; other site 572544001425 Na2 binding site [ion binding]; other site 572544001426 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 572544001427 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544001428 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544001429 metal binding site [ion binding]; metal-binding site 572544001430 active site 572544001431 I-site; other site 572544001432 amino acid transporter; Region: 2A0306; TIGR00909 572544001433 Spore germination protein; Region: Spore_permease; cl17796 572544001434 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 572544001435 Nnf1; Region: Nnf1; pfam03980 572544001436 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 572544001437 active site 572544001438 phosphorylation site [posttranslational modification] 572544001439 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 572544001440 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 572544001441 dimer interface [polypeptide binding]; other site 572544001442 active site 572544001443 glycine-pyridoxal phosphate binding site [chemical binding]; other site 572544001444 folate binding site [chemical binding]; other site 572544001445 DNA-binding protein, stimulates sugar fermentation [General function prediction only]; Region: SfsA; COG1489 572544001446 Cysteine-rich small domain; Region: zf-like; cl00946 572544001447 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 572544001448 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 572544001449 FeS/SAM binding site; other site 572544001450 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 572544001451 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 572544001452 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 572544001453 RNA binding site [nucleotide binding]; other site 572544001454 active site 572544001455 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 572544001456 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 572544001457 G1 box; other site 572544001458 putative GEF interaction site [polypeptide binding]; other site 572544001459 GTP/Mg2+ binding site [chemical binding]; other site 572544001460 Switch I region; other site 572544001461 G2 box; other site 572544001462 G3 box; other site 572544001463 Switch II region; other site 572544001464 G4 box; other site 572544001465 G5 box; other site 572544001466 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 572544001467 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 572544001468 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 572544001469 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 572544001470 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 572544001471 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572544001472 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 572544001473 DAK2 domain; Region: Dak2; pfam02734 572544001474 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 572544001475 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 572544001476 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 572544001477 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 572544001478 putative active site; other site 572544001479 catalytic residue [active] 572544001480 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 572544001481 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 572544001482 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 572544001483 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; cl17320 572544001484 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 572544001485 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 572544001486 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 572544001487 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 572544001488 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 572544001489 tetramer interface [polypeptide binding]; other site 572544001490 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 572544001491 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 572544001492 G1 box; other site 572544001493 GTP/Mg2+ binding site [chemical binding]; other site 572544001494 Switch I region; other site 572544001495 G2 box; other site 572544001496 Switch II region; other site 572544001497 G3 box; other site 572544001498 G4 box; other site 572544001499 G5 box; other site 572544001500 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 572544001501 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 572544001502 dimerization interface [polypeptide binding]; other site 572544001503 putative DNA binding site [nucleotide binding]; other site 572544001504 putative Zn2+ binding site [ion binding]; other site 572544001505 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 572544001506 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544001507 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 572544001508 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 572544001509 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572544001510 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 572544001511 DNA binding residues [nucleotide binding] 572544001512 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 572544001513 active site 572544001514 putative DNA-binding cleft [nucleotide binding]; other site 572544001515 dimer interface [polypeptide binding]; other site 572544001516 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544001517 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 572544001518 dimer interface [polypeptide binding]; other site 572544001519 phosphorylation site [posttranslational modification] 572544001520 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544001521 ATP binding site [chemical binding]; other site 572544001522 Mg2+ binding site [ion binding]; other site 572544001523 G-X-G motif; other site 572544001524 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 572544001525 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 572544001526 amino acid transporter; Region: 2A0306; TIGR00909 572544001527 ornithine cyclodeaminase; Validated; Region: PRK06199 572544001528 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 572544001529 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 572544001530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 572544001531 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544001532 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 572544001533 NAD(P) binding pocket [chemical binding]; other site 572544001534 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572544001535 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 572544001536 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572544001537 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 572544001538 homotrimer interaction site [polypeptide binding]; other site 572544001539 putative active site [active] 572544001540 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544001541 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572544001542 active site 572544001543 NAD binding site [chemical binding]; other site 572544001544 metal binding site [ion binding]; metal-binding site 572544001545 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 572544001546 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 572544001547 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 572544001548 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544001549 DNA-binding site [nucleotide binding]; DNA binding site 572544001550 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 572544001551 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 572544001552 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 572544001553 NAD binding site [chemical binding]; other site 572544001554 sugar binding site [chemical binding]; other site 572544001555 divalent metal binding site [ion binding]; other site 572544001556 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 572544001557 dimer interface [polypeptide binding]; other site 572544001558 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 572544001559 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 572544001560 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 572544001561 active site turn [active] 572544001562 phosphorylation site [posttranslational modification] 572544001563 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 572544001564 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 572544001565 HPr interaction site; other site 572544001566 glycerol kinase (GK) interaction site [polypeptide binding]; other site 572544001567 active site 572544001568 phosphorylation site [posttranslational modification] 572544001569 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 572544001570 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572544001571 nucleotide binding site [chemical binding]; other site 572544001572 UV-endonuclease UvdE; Region: UvdE; cl10036 572544001573 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 572544001574 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 572544001575 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 572544001576 FeS/SAM binding site; other site 572544001577 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 572544001578 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 572544001579 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 572544001580 folate binding site [chemical binding]; other site 572544001581 NADP+ binding site [chemical binding]; other site 572544001582 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 572544001583 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544001584 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544001585 WHG domain; Region: WHG; pfam13305 572544001586 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 572544001587 DHH family; Region: DHH; pfam01368 572544001588 DHHA1 domain; Region: DHHA1; pfam02272 572544001589 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 572544001590 AMMECR1; Region: AMMECR1; pfam01871 572544001591 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 572544001592 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 572544001593 FeS/SAM binding site; other site 572544001594 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 572544001595 putative ligand binding pocket/active site [active] 572544001596 putative metal binding site [ion binding]; other site 572544001597 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 572544001598 TPR motif; other site 572544001599 binding surface 572544001600 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 572544001601 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 572544001602 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 572544001603 N-acetyl-D-glucosamine binding site [chemical binding]; other site 572544001604 catalytic residue [active] 572544001605 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 572544001606 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544001607 ATP binding site [chemical binding]; other site 572544001608 Mg2+ binding site [ion binding]; other site 572544001609 G-X-G motif; other site 572544001610 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 572544001611 ATP binding site [chemical binding]; other site 572544001612 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 572544001613 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 572544001614 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 572544001615 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 572544001616 TPR motif; other site 572544001617 binding surface 572544001618 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572544001619 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 572544001620 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 572544001621 dimer interface [polypeptide binding]; other site 572544001622 putative anticodon binding site; other site 572544001623 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 572544001624 motif 1; other site 572544001625 active site 572544001626 motif 2; other site 572544001627 motif 3; other site 572544001628 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544001629 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544001630 metal binding site [ion binding]; metal-binding site 572544001631 active site 572544001632 I-site; other site 572544001633 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_5; cd11352 572544001634 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 572544001635 active site 572544001636 catalytic site [active] 572544001637 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544001638 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 572544001639 dimer interface [polypeptide binding]; other site 572544001640 active site 572544001641 metal binding site [ion binding]; metal-binding site 572544001642 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 572544001643 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 572544001644 putative NADH binding site [chemical binding]; other site 572544001645 putative active site [active] 572544001646 nudix motif; other site 572544001647 putative metal binding site [ion binding]; other site 572544001648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572544001649 Coenzyme A binding pocket [chemical binding]; other site 572544001650 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 572544001651 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 572544001652 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572544001653 FtsX-like permease family; Region: FtsX; pfam02687 572544001654 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572544001655 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 572544001656 Walker A/P-loop; other site 572544001657 ATP binding site [chemical binding]; other site 572544001658 Q-loop/lid; other site 572544001659 ABC transporter signature motif; other site 572544001660 Walker B; other site 572544001661 D-loop; other site 572544001662 H-loop/switch region; other site 572544001663 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 572544001664 30S subunit binding site; other site 572544001665 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 572544001666 homotrimer interface [polypeptide binding]; other site 572544001667 Walker A motif; other site 572544001668 GTP binding site [chemical binding]; other site 572544001669 Walker B motif; other site 572544001670 cobalamin synthase; Reviewed; Region: cobS; PRK00235 572544001671 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 572544001672 catalytic core [active] 572544001673 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 572544001674 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 572544001675 putative dimer interface [polypeptide binding]; other site 572544001676 active site pocket [active] 572544001677 putative cataytic base [active] 572544001678 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 572544001679 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 572544001680 MPN+ (JAMM) motif; other site 572544001681 Zinc-binding site [ion binding]; other site 572544001682 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 572544001683 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 572544001684 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544001685 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 572544001686 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 572544001687 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 572544001688 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 572544001689 putative substrate binding site [chemical binding]; other site 572544001690 putative ATP binding site [chemical binding]; other site 572544001691 excinuclease ABC subunit B; Provisional; Region: PRK05298 572544001692 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 572544001693 ATP binding site [chemical binding]; other site 572544001694 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 572544001695 nucleotide binding region [chemical binding]; other site 572544001696 ATP-binding site [chemical binding]; other site 572544001697 Ultra-violet resistance protein B; Region: UvrB; pfam12344 572544001698 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 572544001699 active site 572544001700 Ap4A binding cleft/pocket [chemical binding]; other site 572544001701 P4 phosphate binding site; other site 572544001702 nudix motif; other site 572544001703 putative P2/P3 phosphate binding site [ion binding]; other site 572544001704 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 572544001705 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 572544001706 generic binding surface II; other site 572544001707 generic binding surface I; other site 572544001708 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 572544001709 binding surface 572544001710 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572544001711 TPR motif; other site 572544001712 TPR repeat; Region: TPR_11; pfam13414 572544001713 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 572544001714 DNA protecting protein DprA; Region: dprA; TIGR00732 572544001715 DNA topoisomerase I; Validated; Region: PRK06599 572544001716 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 572544001717 active site 572544001718 interdomain interaction site; other site 572544001719 putative metal-binding site [ion binding]; other site 572544001720 nucleotide binding site [chemical binding]; other site 572544001721 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 572544001722 domain I; other site 572544001723 DNA binding groove [nucleotide binding] 572544001724 phosphate binding site [ion binding]; other site 572544001725 domain II; other site 572544001726 domain III; other site 572544001727 nucleotide binding site [chemical binding]; other site 572544001728 catalytic site [active] 572544001729 domain IV; other site 572544001730 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 572544001731 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 572544001732 Glucose inhibited division protein A; Region: GIDA; pfam01134 572544001733 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 572544001734 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 572544001735 active site 572544001736 DNA binding site [nucleotide binding] 572544001737 Int/Topo IB signature motif; other site 572544001738 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 572544001739 active site 572544001740 HslU subunit interaction site [polypeptide binding]; other site 572544001741 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 572544001742 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 572544001743 GTP/Mg2+ binding site [chemical binding]; other site 572544001744 G4 box; other site 572544001745 G5 box; other site 572544001746 G1 box; other site 572544001747 Switch I region; other site 572544001748 G2 box; other site 572544001749 G3 box; other site 572544001750 Switch II region; other site 572544001751 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 572544001752 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 572544001753 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 572544001754 O-Antigen ligase; Region: Wzy_C; pfam04932 572544001755 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 572544001756 S-adenosylmethionine synthetase; Validated; Region: PRK05250 572544001757 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 572544001758 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 572544001759 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 572544001760 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 572544001761 SLBB domain; Region: SLBB; pfam10531 572544001762 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 572544001763 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 572544001764 FMN-binding domain; Region: FMN_bind; cl01081 572544001765 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 572544001766 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 572544001767 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 572544001768 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 572544001769 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 572544001770 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 572544001771 propionate/acetate kinase; Provisional; Region: PRK12379 572544001772 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 572544001773 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 572544001774 dimer interface [polypeptide binding]; other site 572544001775 PYR/PP interface [polypeptide binding]; other site 572544001776 TPP binding site [chemical binding]; other site 572544001777 substrate binding site [chemical binding]; other site 572544001778 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 572544001779 Domain of unknown function; Region: EKR; pfam10371 572544001780 4Fe-4S binding domain; Region: Fer4_6; pfam12837 572544001781 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 572544001782 TPP-binding site [chemical binding]; other site 572544001783 dimer interface [polypeptide binding]; other site 572544001784 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 572544001785 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 572544001786 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 572544001787 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 572544001788 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 572544001789 aromatic arch; other site 572544001790 DCoH dimer interaction site [polypeptide binding]; other site 572544001791 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 572544001792 DCoH tetramer interaction site [polypeptide binding]; other site 572544001793 substrate binding site [chemical binding]; other site 572544001794 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 572544001795 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 572544001796 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 572544001797 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 572544001798 active site 572544001799 nucleotide binding site [chemical binding]; other site 572544001800 HIGH motif; other site 572544001801 KMSKS motif; other site 572544001802 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 572544001803 Archaeal ATPase; Region: Arch_ATPase; pfam01637 572544001804 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 572544001805 Walker A motif; other site 572544001806 ATP binding site [chemical binding]; other site 572544001807 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 572544001808 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 572544001809 methionine sulfoxide reductase A; Provisional; Region: PRK14054 572544001810 B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'...; Region: Glm_B12_BD; cd02072 572544001811 B12 binding site [chemical binding]; other site 572544001812 heterodimer interface [polypeptide binding]; other site 572544001813 cobalt ligand [ion binding]; other site 572544001814 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572544001815 MutL protein; Region: MutL; pfam13941 572544001816 nucleotide binding site [chemical binding]; other site 572544001817 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cd00245 572544001818 substrate binding site [chemical binding]; other site 572544001819 B12 cofactor binding site [chemical binding]; other site 572544001820 heterodimer (sigma-epsilon) interface [polypeptide binding]; other site 572544001821 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 572544001822 methylaspartate ammonia-lyase; Region: B_methylAsp_ase; TIGR01502 572544001823 Methylaspartate ammonia lyase (3-methylaspartase, MAL) is a homodimeric enzyme, catalyzing the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. This reaction is part of the...; Region: MAL; cd03314 572544001824 dimer interface [polypeptide binding]; other site 572544001825 active site 572544001826 citrate lyase subunit gamma; Provisional; Region: PRK13253 572544001827 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 572544001828 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 572544001829 Coenzyme A transferase; Region: CoA_trans; cl17247 572544001830 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 572544001831 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 572544001832 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 572544001833 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 572544001834 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 572544001835 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 572544001836 homodimer interface [polypeptide binding]; other site 572544001837 substrate-cofactor binding pocket; other site 572544001838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544001839 catalytic residue [active] 572544001840 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 572544001841 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 572544001842 chorismate binding enzyme; Region: Chorismate_bind; cl10555 572544001843 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 572544001844 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 572544001845 glutamine binding [chemical binding]; other site 572544001846 catalytic triad [active] 572544001847 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_6; cd12165 572544001848 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 572544001849 putative ligand binding site [chemical binding]; other site 572544001850 NAD binding site [chemical binding]; other site 572544001851 dimer interface [polypeptide binding]; other site 572544001852 putative catalytic site [active] 572544001853 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 572544001854 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 572544001855 AP (apurinic/apyrimidinic) site pocket; other site 572544001856 DNA interaction; other site 572544001857 Metal-binding active site; metal-binding site 572544001858 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 572544001859 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 572544001860 ligand binding site [chemical binding]; other site 572544001861 NAD binding site [chemical binding]; other site 572544001862 dimerization interface [polypeptide binding]; other site 572544001863 catalytic site [active] 572544001864 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 572544001865 putative L-serine binding site [chemical binding]; other site 572544001866 ribosome maturation protein RimP; Reviewed; Region: PRK00092 572544001867 Sm and related proteins; Region: Sm_like; cl00259 572544001868 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 572544001869 putative oligomer interface [polypeptide binding]; other site 572544001870 putative RNA binding site [nucleotide binding]; other site 572544001871 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 572544001872 NusA N-terminal domain; Region: NusA_N; pfam08529 572544001873 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 572544001874 homodimer interface [polypeptide binding]; other site 572544001875 RNA binding site [nucleotide binding]; other site 572544001876 NusA-like KH domain; Region: KH_5; pfam13184 572544001877 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 572544001878 G-X-X-G motif; other site 572544001879 Protein of unknown function (DUF448); Region: DUF448; pfam04296 572544001880 putative RNA binding cleft [nucleotide binding]; other site 572544001881 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 572544001882 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 572544001883 translation initiation factor IF-2; Region: IF-2; TIGR00487 572544001884 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 572544001885 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 572544001886 G1 box; other site 572544001887 putative GEF interaction site [polypeptide binding]; other site 572544001888 GTP/Mg2+ binding site [chemical binding]; other site 572544001889 Switch I region; other site 572544001890 G2 box; other site 572544001891 G3 box; other site 572544001892 Switch II region; other site 572544001893 G4 box; other site 572544001894 G5 box; other site 572544001895 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 572544001896 Translation-initiation factor 2; Region: IF-2; pfam11987 572544001897 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 572544001898 Ribosome-binding factor A; Region: RBFA; pfam02033 572544001899 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 572544001900 DHH family; Region: DHH; pfam01368 572544001901 DHHA1 domain; Region: DHHA1; pfam02272 572544001902 trigger factor; Region: tig; TIGR00115 572544001903 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 572544001904 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 572544001905 Clp protease; Region: CLP_protease; pfam00574 572544001906 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 572544001907 oligomer interface [polypeptide binding]; other site 572544001908 active site residues [active] 572544001909 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 572544001910 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 572544001911 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 572544001912 Walker A motif; other site 572544001913 ATP binding site [chemical binding]; other site 572544001914 Walker B motif; other site 572544001915 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572544001916 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 572544001917 Found in ATP-dependent protease La (LON); Region: LON; smart00464 572544001918 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 572544001919 Walker A motif; other site 572544001920 ATP binding site [chemical binding]; other site 572544001921 Walker B motif; other site 572544001922 arginine finger; other site 572544001923 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 572544001924 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 572544001925 G1 box; other site 572544001926 GTP/Mg2+ binding site [chemical binding]; other site 572544001927 Switch I region; other site 572544001928 G2 box; other site 572544001929 G3 box; other site 572544001930 Switch II region; other site 572544001931 G4 box; other site 572544001932 G5 box; other site 572544001933 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 572544001934 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 572544001935 HIGH motif; other site 572544001936 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572544001937 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 572544001938 active site 572544001939 KMSKS motif; other site 572544001940 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 572544001941 tRNA binding surface [nucleotide binding]; other site 572544001942 anticodon binding site; other site 572544001943 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 572544001944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572544001945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572544001946 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 572544001947 dimerization interface [polypeptide binding]; other site 572544001948 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 572544001949 active site 572544001950 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 572544001951 Maf-like protein; Reviewed; Region: PRK00078 572544001952 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 572544001953 active site 572544001954 dimer interface [polypeptide binding]; other site 572544001955 rod shape-determining protein MreB; Provisional; Region: PRK13927 572544001956 MreB and similar proteins; Region: MreB_like; cd10225 572544001957 nucleotide binding site [chemical binding]; other site 572544001958 Mg binding site [ion binding]; other site 572544001959 putative protofilament interaction site [polypeptide binding]; other site 572544001960 RodZ interaction site [polypeptide binding]; other site 572544001961 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 572544001962 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 572544001963 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 572544001964 RNA binding surface [nucleotide binding]; other site 572544001965 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 572544001966 active site 572544001967 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 572544001968 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 572544001969 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 572544001970 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 572544001971 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 572544001972 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 572544001973 GatB domain; Region: GatB_Yqey; smart00845 572544001974 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 572544001975 Rubredoxin [Energy production and conversion]; Region: COG1773 572544001976 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 572544001977 iron binding site [ion binding]; other site 572544001978 peptidase T; Region: peptidase-T; TIGR01882 572544001979 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 572544001980 metal binding site [ion binding]; metal-binding site 572544001981 dimer interface [polypeptide binding]; other site 572544001982 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 572544001983 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 572544001984 dimer interface [polypeptide binding]; other site 572544001985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544001986 catalytic residue [active] 572544001987 serine O-acetyltransferase; Region: cysE; TIGR01172 572544001988 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 572544001989 trimer interface [polypeptide binding]; other site 572544001990 active site 572544001991 substrate binding site [chemical binding]; other site 572544001992 CoA binding site [chemical binding]; other site 572544001993 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 572544001994 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 572544001995 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 572544001996 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572544001997 TrkA-N domain; Region: TrkA_N; pfam02254 572544001998 TrkA-C domain; Region: TrkA_C; pfam02080 572544001999 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 572544002000 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 572544002001 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 572544002002 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 572544002003 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544002004 S-adenosylmethionine binding site [chemical binding]; other site 572544002005 Family of unknown function (DUF490); Region: DUF490; pfam04357 572544002006 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 572544002007 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 572544002008 Surface antigen; Region: Bac_surface_Ag; pfam01103 572544002009 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 572544002010 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 572544002011 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 572544002012 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 572544002013 trimer interface [polypeptide binding]; other site 572544002014 active site 572544002015 UDP-GlcNAc binding site [chemical binding]; other site 572544002016 lipid binding site [chemical binding]; lipid-binding site 572544002017 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 572544002018 putative FMN binding site [chemical binding]; other site 572544002019 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572544002020 Methyltransferase domain; Region: Methyltransf_11; pfam08241 572544002021 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 572544002022 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 572544002023 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 572544002024 active site 572544002025 Zn binding site [ion binding]; other site 572544002026 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 572544002027 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 572544002028 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 572544002029 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 572544002030 seryl-tRNA synthetase; Provisional; Region: PRK05431 572544002031 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 572544002032 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 572544002033 dimer interface [polypeptide binding]; other site 572544002034 active site 572544002035 motif 1; other site 572544002036 motif 2; other site 572544002037 motif 3; other site 572544002038 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 572544002039 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 572544002040 intersubunit interface [polypeptide binding]; other site 572544002041 active site 572544002042 zinc binding site [ion binding]; other site 572544002043 Na+ binding site [ion binding]; other site 572544002044 CTP synthetase; Validated; Region: pyrG; PRK05380 572544002045 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 572544002046 Catalytic site [active] 572544002047 active site 572544002048 UTP binding site [chemical binding]; other site 572544002049 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 572544002050 active site 572544002051 putative oxyanion hole; other site 572544002052 catalytic triad [active] 572544002053 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 572544002054 Flavodoxin domain; Region: Flavodoxin_5; cl17428 572544002055 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544002056 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 572544002057 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 572544002058 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 572544002059 putative dimer interface [polypeptide binding]; other site 572544002060 [2Fe-2S] cluster binding site [ion binding]; other site 572544002061 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 572544002062 dimer interface [polypeptide binding]; other site 572544002063 [2Fe-2S] cluster binding site [ion binding]; other site 572544002064 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 572544002065 SLBB domain; Region: SLBB; pfam10531 572544002066 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 572544002067 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 572544002068 4Fe-4S binding domain; Region: Fer4; pfam00037 572544002069 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544002070 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 572544002071 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 572544002072 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 572544002073 4Fe-4S binding domain; Region: Fer4; pfam00037 572544002074 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572544002075 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 572544002076 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544002077 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544002078 active site 572544002079 phosphorylation site [posttranslational modification] 572544002080 intermolecular recognition site; other site 572544002081 dimerization interface [polypeptide binding]; other site 572544002082 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 572544002083 DNA binding site [nucleotide binding] 572544002084 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 572544002085 dimer interface [polypeptide binding]; other site 572544002086 phosphorylation site [posttranslational modification] 572544002087 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544002088 ATP binding site [chemical binding]; other site 572544002089 Mg2+ binding site [ion binding]; other site 572544002090 G-X-G motif; other site 572544002091 oligoendopeptidase F; Region: pepF; TIGR00181 572544002092 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 572544002093 active site 572544002094 Zn binding site [ion binding]; other site 572544002095 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 572544002096 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 572544002097 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 572544002098 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 572544002099 4Fe-4S binding domain; Region: Fer4; cl02805 572544002100 4Fe-4S binding domain; Region: Fer4; pfam00037 572544002101 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 572544002102 [4Fe-4S] binding site [ion binding]; other site 572544002103 molybdopterin cofactor binding site; other site 572544002104 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_CT_Formate-Dh_H; cd02790 572544002105 molybdopterin cofactor binding site; other site 572544002106 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 572544002107 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 572544002108 catalytic loop [active] 572544002109 iron binding site [ion binding]; other site 572544002110 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 572544002111 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 572544002112 4Fe-4S binding domain; Region: Fer4; pfam00037 572544002113 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572544002114 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 572544002115 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 572544002116 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 572544002117 GTP binding site; other site 572544002118 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 572544002119 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 572544002120 tandem repeat interface [polypeptide binding]; other site 572544002121 oligomer interface [polypeptide binding]; other site 572544002122 active site residues [active] 572544002123 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 572544002124 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 572544002125 tandem repeat interface [polypeptide binding]; other site 572544002126 oligomer interface [polypeptide binding]; other site 572544002127 active site residues [active] 572544002128 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 572544002129 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 572544002130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544002131 homodimer interface [polypeptide binding]; other site 572544002132 catalytic residue [active] 572544002133 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 572544002134 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 572544002135 homodimer interface [polypeptide binding]; other site 572544002136 substrate-cofactor binding pocket; other site 572544002137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544002138 catalytic residue [active] 572544002139 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 572544002140 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 572544002141 dimer interface [polypeptide binding]; other site 572544002142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544002143 catalytic residue [active] 572544002144 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544002145 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; cl17320 572544002146 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 572544002147 putative FMN binding site [chemical binding]; other site 572544002148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 572544002149 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572544002150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544002151 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544002152 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 572544002153 4Fe-4S binding domain; Region: Fer4_5; pfam12801 572544002154 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544002155 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 572544002156 putative active site [active] 572544002157 metal binding site [ion binding]; metal-binding site 572544002158 Predicted transcriptional regulators [Transcription]; Region: COG1733 572544002159 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 572544002160 methionine sulfoxide reductase A; Provisional; Region: PRK14054 572544002161 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572544002162 MarR family; Region: MarR_2; pfam12802 572544002163 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 572544002164 FMN binding site [chemical binding]; other site 572544002165 dimer interface [polypeptide binding]; other site 572544002166 hypothetical protein; Validated; Region: PRK00153 572544002167 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 572544002168 putative acyl-acceptor binding pocket; other site 572544002169 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 572544002170 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 572544002171 active site 572544002172 HIGH motif; other site 572544002173 KMSKS motif; other site 572544002174 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 572544002175 anticodon binding site; other site 572544002176 tRNA binding surface [nucleotide binding]; other site 572544002177 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 572544002178 dimer interface [polypeptide binding]; other site 572544002179 putative tRNA-binding site [nucleotide binding]; other site 572544002180 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 572544002181 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 572544002182 active site 572544002183 tetramer interface; other site 572544002184 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 572544002185 putative active site [active] 572544002186 YdjC motif; other site 572544002187 Mg binding site [ion binding]; other site 572544002188 putative homodimer interface [polypeptide binding]; other site 572544002189 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 572544002190 active site 572544002191 metal-binding site [ion binding] 572544002192 nucleotide-binding site [chemical binding]; other site 572544002193 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 572544002194 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 572544002195 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 572544002196 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 572544002197 RNA binding site [nucleotide binding]; other site 572544002198 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 572544002199 dimerization interface [polypeptide binding]; other site 572544002200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544002201 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544002202 ATP binding site [chemical binding]; other site 572544002203 Mg2+ binding site [ion binding]; other site 572544002204 G-X-G motif; other site 572544002205 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 572544002206 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 572544002207 HIGH motif; other site 572544002208 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 572544002209 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 572544002210 active site 572544002211 KMSKS motif; other site 572544002212 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 572544002213 tRNA binding surface [nucleotide binding]; other site 572544002214 anticodon binding site; other site 572544002215 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 572544002216 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 572544002217 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 572544002218 dimer interface [polypeptide binding]; other site 572544002219 motif 1; other site 572544002220 active site 572544002221 motif 2; other site 572544002222 motif 3; other site 572544002223 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 572544002224 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 572544002225 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 572544002226 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 572544002227 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 572544002228 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 572544002229 aspartate kinase; Reviewed; Region: PRK06635 572544002230 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 572544002231 putative catalytic residues [active] 572544002232 putative nucleotide binding site [chemical binding]; other site 572544002233 putative aspartate binding site [chemical binding]; other site 572544002234 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 572544002235 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family 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: APH_ChoK_like; cl17270 572544002236 active site 572544002237 substrate binding site [chemical binding]; other site 572544002238 ATP binding site [chemical binding]; other site 572544002239 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 572544002240 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 572544002241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544002242 catalytic residue [active] 572544002243 TSCPD domain; Region: TSCPD; cl14834 572544002244 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 572544002245 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 572544002246 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 572544002247 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 572544002248 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 572544002249 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 572544002250 ATP binding site [chemical binding]; other site 572544002251 putative Mg++ binding site [ion binding]; other site 572544002252 nucleotide binding region [chemical binding]; other site 572544002253 helicase superfamily c-terminal domain; Region: HELICc; smart00490 572544002254 ATP-binding site [chemical binding]; other site 572544002255 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 572544002256 active site 572544002257 catalytic residues [active] 572544002258 metal binding site [ion binding]; metal-binding site 572544002259 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 572544002260 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 572544002261 putative active site [active] 572544002262 substrate binding site [chemical binding]; other site 572544002263 putative cosubstrate binding site; other site 572544002264 catalytic site [active] 572544002265 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 572544002266 substrate binding site [chemical binding]; other site 572544002267 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 572544002268 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 572544002269 CoA binding domain; Region: CoA_binding; pfam02629 572544002270 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 572544002271 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 572544002272 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 572544002273 homodimer interface [polypeptide binding]; other site 572544002274 NADP binding site [chemical binding]; other site 572544002275 substrate binding site [chemical binding]; other site 572544002276 hypothetical protein; Provisional; Region: PRK04435 572544002277 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 572544002278 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 572544002279 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 572544002280 carboxyltransferase (CT) interaction site; other site 572544002281 biotinylation site [posttranslational modification]; other site 572544002282 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 572544002283 active site 572544002284 multimer interface [polypeptide binding]; other site 572544002285 FOG: CBS domain [General function prediction only]; Region: COG0517 572544002286 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_8; cd04621 572544002287 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 572544002288 Domain of unknown function DUF21; Region: DUF21; pfam01595 572544002289 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 572544002290 Transporter associated domain; Region: CorC_HlyC; smart01091 572544002291 Uncharacterized conserved protein [Function unknown]; Region: COG2928 572544002292 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 572544002293 Tetratricopeptide repeat; Region: TPR_16; pfam13432 572544002294 TPR motif; other site 572544002295 binding surface 572544002296 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 572544002297 nudix motif; other site 572544002298 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 572544002299 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 572544002300 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 572544002301 Walker A motif; other site 572544002302 ATP binding site [chemical binding]; other site 572544002303 Walker B motif; other site 572544002304 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572544002305 active site 572544002306 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 572544002307 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544002308 Zn2+ binding site [ion binding]; other site 572544002309 Mg2+ binding site [ion binding]; other site 572544002310 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 572544002311 synthetase active site [active] 572544002312 NTP binding site [chemical binding]; other site 572544002313 metal binding site [ion binding]; metal-binding site 572544002314 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 572544002315 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 572544002316 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 572544002317 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 572544002318 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 572544002319 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 572544002320 catalytic loop [active] 572544002321 iron binding site [ion binding]; other site 572544002322 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 572544002323 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 572544002324 4Fe-4S binding domain; Region: Fer4; pfam00037 572544002325 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572544002326 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 572544002327 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 572544002328 dimer interface [polypeptide binding]; other site 572544002329 [2Fe-2S] cluster binding site [ion binding]; other site 572544002330 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 572544002331 SLBB domain; Region: SLBB; pfam10531 572544002332 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 572544002333 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 572544002334 4Fe-4S binding domain; Region: Fer4; pfam00037 572544002335 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544002336 4Fe-4S binding domain; Region: Fer4; pfam00037 572544002337 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 572544002338 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 572544002339 putative dimer interface [polypeptide binding]; other site 572544002340 [2Fe-2S] cluster binding site [ion binding]; other site 572544002341 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 572544002342 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 572544002343 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 572544002344 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 572544002345 active site pocket [active] 572544002346 glycogen synthase; Provisional; Region: glgA; PRK00654 572544002347 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 572544002348 ADP-binding pocket [chemical binding]; other site 572544002349 homodimer interface [polypeptide binding]; other site 572544002350 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 572544002351 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 572544002352 ligand binding site; other site 572544002353 oligomer interface; other site 572544002354 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 572544002355 dimer interface [polypeptide binding]; other site 572544002356 N-terminal domain interface [polypeptide binding]; other site 572544002357 sulfate 1 binding site; other site 572544002358 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 572544002359 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 572544002360 ligand binding site; other site 572544002361 oligomer interface; other site 572544002362 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 572544002363 dimer interface [polypeptide binding]; other site 572544002364 N-terminal domain interface [polypeptide binding]; other site 572544002365 sulfate 1 binding site; other site 572544002366 glycogen branching enzyme; Provisional; Region: PRK12313 572544002367 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 572544002368 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 572544002369 active site 572544002370 catalytic site [active] 572544002371 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 572544002372 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 572544002373 dimer interface [polypeptide binding]; other site 572544002374 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 572544002375 dimerization interface [polypeptide binding]; other site 572544002376 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 572544002377 dimer interface [polypeptide binding]; other site 572544002378 phosphorylation site [posttranslational modification] 572544002379 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544002380 ATP binding site [chemical binding]; other site 572544002381 Mg2+ binding site [ion binding]; other site 572544002382 G-X-G motif; other site 572544002383 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544002384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544002385 active site 572544002386 phosphorylation site [posttranslational modification] 572544002387 intermolecular recognition site; other site 572544002388 dimerization interface [polypeptide binding]; other site 572544002389 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 572544002390 DNA binding site [nucleotide binding] 572544002391 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 572544002392 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544002393 S-adenosylmethionine binding site [chemical binding]; other site 572544002394 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 572544002395 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 572544002396 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 572544002397 dimer interface [polypeptide binding]; other site 572544002398 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 572544002399 L-type amino acid transporter; Region: 2A0308; TIGR00911 572544002400 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 572544002401 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 572544002402 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 572544002403 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 572544002404 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 572544002405 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 572544002406 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 572544002407 active site 572544002408 nucleophile elbow; other site 572544002409 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 572544002410 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 572544002411 active site 572544002412 putative substrate binding pocket [chemical binding]; other site 572544002413 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 572544002414 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 572544002415 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 572544002416 active site 572544002417 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 572544002418 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 572544002419 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 572544002420 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 572544002421 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544002422 Walker A/P-loop; other site 572544002423 ATP binding site [chemical binding]; other site 572544002424 Q-loop/lid; other site 572544002425 ABC transporter signature motif; other site 572544002426 Walker B; other site 572544002427 D-loop; other site 572544002428 H-loop/switch region; other site 572544002429 TOBE domain; Region: TOBE_2; pfam08402 572544002430 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 572544002431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544002432 dimer interface [polypeptide binding]; other site 572544002433 conserved gate region; other site 572544002434 putative PBP binding loops; other site 572544002435 ABC-ATPase subunit interface; other site 572544002436 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 572544002437 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544002438 dimer interface [polypeptide binding]; other site 572544002439 conserved gate region; other site 572544002440 putative PBP binding loops; other site 572544002441 ABC-ATPase subunit interface; other site 572544002442 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572544002443 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572544002444 DNA binding site [nucleotide binding] 572544002445 domain linker motif; other site 572544002446 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 572544002447 dimerization interface [polypeptide binding]; other site 572544002448 ligand binding site [chemical binding]; other site 572544002449 Transglycosylase; Region: Transgly; pfam00912 572544002450 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 572544002451 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 572544002452 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 572544002453 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572544002454 active site 572544002455 motif I; other site 572544002456 motif II; other site 572544002457 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 572544002458 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 572544002459 Na2 binding site [ion binding]; other site 572544002460 putative substrate binding site 1 [chemical binding]; other site 572544002461 Na binding site 1 [ion binding]; other site 572544002462 putative substrate binding site 2 [chemical binding]; other site 572544002463 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 572544002464 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572544002465 Coenzyme A binding pocket [chemical binding]; other site 572544002466 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 572544002467 histidinol-phosphatase; Provisional; Region: PRK05588 572544002468 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 572544002469 active site 572544002470 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 572544002471 butyrate kinase; Provisional; Region: PRK03011 572544002472 GTP-binding protein LepA; Provisional; Region: PRK05433 572544002473 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 572544002474 G1 box; other site 572544002475 putative GEF interaction site [polypeptide binding]; other site 572544002476 GTP/Mg2+ binding site [chemical binding]; other site 572544002477 Switch I region; other site 572544002478 G2 box; other site 572544002479 G3 box; other site 572544002480 Switch II region; other site 572544002481 G4 box; other site 572544002482 G5 box; other site 572544002483 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 572544002484 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 572544002485 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 572544002486 flavoprotein, HI0933 family; Region: TIGR00275 572544002487 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 572544002488 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 572544002489 active site 572544002490 phosphorylation site [posttranslational modification] 572544002491 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 572544002492 active site 572544002493 P-loop; other site 572544002494 phosphorylation site [posttranslational modification] 572544002495 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 572544002496 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 572544002497 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 572544002498 putative substrate binding site [chemical binding]; other site 572544002499 putative ATP binding site [chemical binding]; other site 572544002500 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 572544002501 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 572544002502 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 572544002503 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 572544002504 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 572544002505 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 572544002506 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 572544002507 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 572544002508 dimerization domain swap beta strand [polypeptide binding]; other site 572544002509 regulatory protein interface [polypeptide binding]; other site 572544002510 active site 572544002511 regulatory phosphorylation site [posttranslational modification]; other site 572544002512 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 572544002513 active site 572544002514 substrate binding site [chemical binding]; other site 572544002515 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 572544002516 FMN binding site [chemical binding]; other site 572544002517 putative catalytic residues [active] 572544002518 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 572544002519 trimer interface [polypeptide binding]; other site 572544002520 putative Zn binding site [ion binding]; other site 572544002521 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 572544002522 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 572544002523 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 572544002524 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 572544002525 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 572544002526 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 572544002527 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 572544002528 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 572544002529 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544002530 DNA-binding site [nucleotide binding]; DNA binding site 572544002531 UTRA domain; Region: UTRA; pfam07702 572544002532 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 572544002533 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 572544002534 active site 572544002535 phosphorylation site [posttranslational modification] 572544002536 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 572544002537 active site 572544002538 P-loop; other site 572544002539 phosphorylation site [posttranslational modification] 572544002540 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 572544002541 alpha-mannosidase; Provisional; Region: PRK09819 572544002542 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 572544002543 active site 572544002544 metal binding site [ion binding]; metal-binding site 572544002545 catalytic site [active] 572544002546 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 572544002547 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 572544002548 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572544002549 Coenzyme A binding pocket [chemical binding]; other site 572544002550 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 572544002551 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 572544002552 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 572544002553 Uncharacterized conserved protein [Function unknown]; Region: COG2968 572544002554 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 572544002555 MgtC family; Region: MgtC; pfam02308 572544002556 dipeptidase PepV; Reviewed; Region: PRK07318 572544002557 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 572544002558 active site 572544002559 metal binding site [ion binding]; metal-binding site 572544002560 Predicted acetyltransferase [General function prediction only]; Region: COG2388 572544002561 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 572544002562 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 572544002563 DNA binding residues [nucleotide binding] 572544002564 drug binding residues [chemical binding]; other site 572544002565 Protein of unknown function, DUF606; Region: DUF606; pfam04657 572544002566 Protein of unknown function, DUF606; Region: DUF606; pfam04657 572544002567 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 572544002568 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 572544002569 ligand binding site [chemical binding]; other site 572544002570 flexible hinge region; other site 572544002571 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 572544002572 DNA binding site [nucleotide binding] 572544002573 sequence specific DNA binding site [nucleotide binding]; other site 572544002574 putative cAMP binding site [chemical binding]; other site 572544002575 16S rRNA methyltransferase B; Provisional; Region: PRK14902 572544002576 NusB family; Region: NusB; pfam01029 572544002577 putative RNA binding site [nucleotide binding]; other site 572544002578 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544002579 S-adenosylmethionine binding site [chemical binding]; other site 572544002580 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 572544002581 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544002582 S-adenosylmethionine binding site [chemical binding]; other site 572544002583 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 572544002584 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 572544002585 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572544002586 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572544002587 ABC transporter; Region: ABC_tran_2; pfam12848 572544002588 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572544002589 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 572544002590 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 572544002591 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 572544002592 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 572544002593 non-specific DNA binding site [nucleotide binding]; other site 572544002594 salt bridge; other site 572544002595 sequence-specific DNA binding site [nucleotide binding]; other site 572544002596 Cupin domain; Region: Cupin_2; pfam07883 572544002597 Predicted DNA modification methylase [DNA replication, recombination, and repair]; Region: COG1041 572544002598 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544002599 Preprotein translocase subunit; Region: YajC; cl00806 572544002600 Short C-terminal domain; Region: SHOCT; pfam09851 572544002601 Uncharacterized conserved protein [Function unknown]; Region: COG0393 572544002602 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 572544002603 putative substrate binding pocket [chemical binding]; other site 572544002604 AC domain interface; other site 572544002605 catalytic triad [active] 572544002606 AB domain interface; other site 572544002607 interchain disulfide; other site 572544002608 Predicted membrane protein [Function unknown]; Region: COG3817 572544002609 Protein of unknown function (DUF979); Region: DUF979; pfam06166 572544002610 Protein of unknown function (DUF969); Region: DUF969; pfam06149 572544002611 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544002612 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 572544002613 ligand binding site [chemical binding]; other site 572544002614 flexible hinge region; other site 572544002615 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 572544002616 dimerization interface [polypeptide binding]; other site 572544002617 putative DNA binding site [nucleotide binding]; other site 572544002618 putative Zn2+ binding site [ion binding]; other site 572544002619 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 572544002620 Sodium Bile acid symporter family; Region: SBF; cl17470 572544002621 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 572544002622 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544002623 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572544002624 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 572544002625 active site residue [active] 572544002626 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 572544002627 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 572544002628 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 572544002629 binding surface 572544002630 TPR repeat; Region: TPR_11; pfam13414 572544002631 TPR motif; other site 572544002632 TPR repeat; Region: TPR_11; pfam13414 572544002633 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 572544002634 binding surface 572544002635 TPR motif; other site 572544002636 TPR repeat; Region: TPR_11; pfam13414 572544002637 Tetratricopeptide repeat; Region: TPR_1; pfam00515 572544002638 TPR repeat; Region: TPR_11; pfam13414 572544002639 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 572544002640 binding surface 572544002641 TPR motif; other site 572544002642 TPR repeat; Region: TPR_11; pfam13414 572544002643 PAS domain S-box; Region: sensory_box; TIGR00229 572544002644 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 572544002645 putative active site [active] 572544002646 heme pocket [chemical binding]; other site 572544002647 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544002648 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544002649 metal binding site [ion binding]; metal-binding site 572544002650 active site 572544002651 I-site; other site 572544002652 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 572544002653 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544002654 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544002655 metal binding site [ion binding]; metal-binding site 572544002656 active site 572544002657 I-site; other site 572544002658 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 572544002659 diiron binding motif [ion binding]; other site 572544002660 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 572544002661 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 572544002662 putative substrate translocation pore; other site 572544002663 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 572544002664 active site clefts [active] 572544002665 zinc binding site [ion binding]; other site 572544002666 dimer interface [polypeptide binding]; other site 572544002667 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 572544002668 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 572544002669 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 572544002670 Transglycosylase; Region: Transgly; pfam00912 572544002671 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 572544002672 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 572544002673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 572544002674 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 572544002675 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 572544002676 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 572544002677 Bacterial sugar transferase; Region: Bac_transf; pfam02397 572544002678 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 572544002679 active site 572544002680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544002681 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 572544002682 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 572544002683 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 572544002684 NADP binding site [chemical binding]; other site 572544002685 active site 572544002686 putative substrate binding site [chemical binding]; other site 572544002687 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 572544002688 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 572544002689 NADP-binding site; other site 572544002690 homotetramer interface [polypeptide binding]; other site 572544002691 substrate binding site [chemical binding]; other site 572544002692 homodimer interface [polypeptide binding]; other site 572544002693 active site 572544002694 putative glycosyl transferase; Provisional; Region: PRK10307 572544002695 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 572544002696 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 572544002697 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 572544002698 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 572544002699 substrate binding site; other site 572544002700 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 572544002701 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 572544002702 NAD binding site [chemical binding]; other site 572544002703 homotetramer interface [polypeptide binding]; other site 572544002704 homodimer interface [polypeptide binding]; other site 572544002705 substrate binding site [chemical binding]; other site 572544002706 active site 572544002707 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 572544002708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572544002709 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 572544002710 NAD(P) binding site [chemical binding]; other site 572544002711 active site 572544002712 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 572544002713 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 572544002714 active site 572544002715 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 572544002716 active site 572544002717 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 572544002718 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544002719 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 572544002720 active site 572544002721 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 572544002722 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544002723 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 572544002724 Right handed beta helix region; Region: Beta_helix; pfam13229 572544002725 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 572544002726 Chain length determinant protein; Region: Wzz; cl15801 572544002727 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 572544002728 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 572544002729 Outer membrane efflux protein; Region: OEP; pfam02321 572544002730 Outer membrane efflux protein; Region: OEP; pfam02321 572544002731 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572544002732 HlyD family secretion protein; Region: HlyD_3; pfam13437 572544002733 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 572544002734 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 572544002735 active site 572544002736 oxaloacetate decarboxylase; Provisional; Region: PRK12331 572544002737 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 572544002738 active site 572544002739 catalytic residues [active] 572544002740 metal binding site [ion binding]; metal-binding site 572544002741 homodimer binding site [polypeptide binding]; other site 572544002742 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 572544002743 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 572544002744 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 572544002745 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 572544002746 putative active site [active] 572544002747 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 572544002748 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 572544002749 classical (c) SDRs; Region: SDR_c; cd05233 572544002750 NAD(P) binding site [chemical binding]; other site 572544002751 active site 572544002752 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 572544002753 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 572544002754 putative acyl-acceptor binding pocket; other site 572544002755 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 572544002756 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 572544002757 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 572544002758 Protein phosphatase 2C; Region: PP2C; pfam00481 572544002759 active site 572544002760 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 572544002761 active site 572544002762 LPP20 lipoprotein; Region: LPP20; pfam02169 572544002763 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 572544002764 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 572544002765 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 572544002766 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572544002767 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572544002768 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 572544002769 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 572544002770 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 572544002771 homohexamer subunit interaction site [polypeptide binding]; other site 572544002772 Hpr binding site; other site 572544002773 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 572544002774 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 572544002775 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 572544002776 Hpr binding site; other site 572544002777 active site 572544002778 homohexamer subunit interaction site [polypeptide binding]; other site 572544002779 Uncharacterized conserved protein [Function unknown]; Region: COG1284 572544002780 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 572544002781 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 572544002782 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 572544002783 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 572544002784 homooctamer interface [polypeptide binding]; other site 572544002785 active site 572544002786 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 572544002787 catalytic center binding site [active] 572544002788 ATP binding site [chemical binding]; other site 572544002789 Uncharacterized conserved protein [Function unknown]; Region: COG1683 572544002790 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 572544002791 DHH family; Region: DHH; pfam01368 572544002792 DHHA1 domain; Region: DHHA1; pfam02272 572544002793 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 572544002794 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 572544002795 Protein of unknown function (DUF552); Region: DUF552; cl00775 572544002796 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 572544002797 dihydroxyacetone kinase, phosphotransfer subunit; Region: dha_pts; TIGR02364 572544002798 active pocket/dimerization site; other site 572544002799 active site 572544002800 phosphorylation site [posttranslational modification] 572544002801 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 572544002802 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 572544002803 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 572544002804 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 572544002805 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 572544002806 active site 572544002807 catalytic site [active] 572544002808 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 572544002809 DNA-binding site [nucleotide binding]; DNA binding site 572544002810 RNA-binding motif; other site 572544002811 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 572544002812 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 572544002813 active site 572544002814 metal binding site [ion binding]; metal-binding site 572544002815 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 572544002816 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 572544002817 metal binding site [ion binding]; metal-binding site 572544002818 dimer interface [polypeptide binding]; other site 572544002819 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 572544002820 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 572544002821 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572544002822 active site 572544002823 motif I; other site 572544002824 motif II; other site 572544002825 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 572544002826 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 572544002827 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 572544002828 dimer interface [polypeptide binding]; other site 572544002829 ssDNA binding site [nucleotide binding]; other site 572544002830 tetramer (dimer of dimers) interface [polypeptide binding]; other site 572544002831 MltA-interacting protein MipA; Region: MipA; cl01504 572544002832 DNA polymerase I; Provisional; Region: PRK05755 572544002833 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 572544002834 active site 572544002835 metal binding site 1 [ion binding]; metal-binding site 572544002836 putative 5' ssDNA interaction site; other site 572544002837 metal binding site 3; metal-binding site 572544002838 metal binding site 2 [ion binding]; metal-binding site 572544002839 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 572544002840 putative DNA binding site [nucleotide binding]; other site 572544002841 putative metal binding site [ion binding]; other site 572544002842 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 572544002843 active site 572544002844 substrate binding site [chemical binding]; other site 572544002845 catalytic site [active] 572544002846 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 572544002847 active site 572544002848 DNA binding site [nucleotide binding] 572544002849 catalytic site [active] 572544002850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 572544002851 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 572544002852 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 572544002853 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 572544002854 active site 572544002855 Riboflavin kinase; Region: Flavokinase; pfam01687 572544002856 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 572544002857 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 572544002858 MviN-like protein; Region: MVIN; pfam03023 572544002859 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 572544002860 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544002861 S-adenosylmethionine binding site [chemical binding]; other site 572544002862 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 572544002863 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 572544002864 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572544002865 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 572544002866 FtsX-like permease family; Region: FtsX; pfam02687 572544002867 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572544002868 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 572544002869 Walker A/P-loop; other site 572544002870 ATP binding site [chemical binding]; other site 572544002871 Q-loop/lid; other site 572544002872 ABC transporter signature motif; other site 572544002873 Walker B; other site 572544002874 D-loop; other site 572544002875 H-loop/switch region; other site 572544002876 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572544002877 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572544002878 HlyD family secretion protein; Region: HlyD_3; pfam13437 572544002879 Haemolysin-III related; Region: HlyIII; cl03831 572544002880 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 572544002881 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 572544002882 non-specific DNA binding site [nucleotide binding]; other site 572544002883 salt bridge; other site 572544002884 sequence-specific DNA binding site [nucleotide binding]; other site 572544002885 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 572544002886 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 572544002887 putative active site [active] 572544002888 putative metal binding site [ion binding]; other site 572544002889 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 572544002890 Radical SAM superfamily; Region: Radical_SAM; pfam04055 572544002891 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 572544002892 FeS/SAM binding site; other site 572544002893 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 572544002894 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 572544002895 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 572544002896 ligand binding site [chemical binding]; other site 572544002897 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572544002898 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 572544002899 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 572544002900 Nitrogen regulatory protein P-II; Region: P-II; smart00938 572544002901 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 572544002902 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 572544002903 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 572544002904 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 572544002905 tetramer interface [polypeptide binding]; other site 572544002906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544002907 catalytic residue [active] 572544002908 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 572544002909 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544002910 S-adenosylmethionine binding site [chemical binding]; other site 572544002911 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; cd00338 572544002912 multiple promoter invertase; Provisional; Region: mpi; PRK13413 572544002913 catalytic residues [active] 572544002914 catalytic nucleophile [active] 572544002915 Recombinase; Region: Recombinase; pfam07508 572544002916 Transposase; Region: HTH_Tnp_1; cl17663 572544002917 putative transposase OrfB; Reviewed; Region: PHA02517 572544002918 HTH-like domain; Region: HTH_21; pfam13276 572544002919 Integrase core domain; Region: rve; pfam00665 572544002920 Integrase core domain; Region: rve_3; pfam13683 572544002921 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 572544002922 Helix-turn-helix; Region: HTH_3; pfam01381 572544002923 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 572544002924 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572544002925 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572544002926 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 572544002927 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 572544002928 Nitrogen regulatory protein P-II; Region: P-II; smart00938 572544002929 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 572544002930 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 572544002931 Nitrogen regulatory protein P-II; Region: P-II; smart00938 572544002932 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544002933 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 572544002934 putative active site [active] 572544002935 metal binding site [ion binding]; metal-binding site 572544002936 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 572544002937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572544002938 NAD(P) binding site [chemical binding]; other site 572544002939 active site 572544002940 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; cd01983 572544002941 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 572544002942 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 572544002943 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 572544002944 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544002945 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572544002946 Ion channel; Region: Ion_trans_2; pfam07885 572544002947 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 572544002948 TrkA-N domain; Region: TrkA_N; pfam02254 572544002949 TrkA-C domain; Region: TrkA_C; pfam02080 572544002950 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 572544002951 dinuclear metal binding motif [ion binding]; other site 572544002952 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 572544002953 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 572544002954 Transposase IS200 like; Region: Y1_Tnp; pfam01797 572544002955 integron integrase; Region: integrase_gron; TIGR02249 572544002956 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 572544002957 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 572544002958 active site 572544002959 catalytic residues [active] 572544002960 DNA binding site [nucleotide binding] 572544002961 Int/Topo IB signature motif; other site 572544002962 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 572544002963 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 572544002964 RNA binding surface [nucleotide binding]; other site 572544002965 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 572544002966 active site 572544002967 uracil binding [chemical binding]; other site 572544002968 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572544002969 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572544002970 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572544002971 Peptidase family M23; Region: Peptidase_M23; pfam01551 572544002972 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 572544002973 diiron binding motif [ion binding]; other site 572544002974 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 572544002975 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 572544002976 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 572544002977 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 572544002978 active site 572544002979 catalytic site [active] 572544002980 Transposase IS200 like; Region: Y1_Tnp; pfam01797 572544002981 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 572544002982 FMN binding site [chemical binding]; other site 572544002983 dimer interface [polypeptide binding]; other site 572544002984 endonuclease IV; Provisional; Region: PRK01060 572544002985 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 572544002986 AP (apurinic/apyrimidinic) site pocket; other site 572544002987 DNA interaction; other site 572544002988 Metal-binding active site; metal-binding site 572544002989 aspartate kinase; Reviewed; Region: PRK09034 572544002990 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 572544002991 nucleotide binding site [chemical binding]; other site 572544002992 substrate binding site [chemical binding]; other site 572544002993 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 572544002994 allosteric regulatory residue; other site 572544002995 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 572544002996 Protein of unknown function DUF86; Region: DUF86; cl01031 572544002997 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 572544002998 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR1; cd08267 572544002999 putative NAD(P) binding site [chemical binding]; other site 572544003000 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 572544003001 DNA-binding site [nucleotide binding]; DNA binding site 572544003002 RNA-binding motif; other site 572544003003 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 572544003004 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544003005 Walker A/P-loop; other site 572544003006 ATP binding site [chemical binding]; other site 572544003007 Q-loop/lid; other site 572544003008 ABC transporter signature motif; other site 572544003009 Walker B; other site 572544003010 D-loop; other site 572544003011 H-loop/switch region; other site 572544003012 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572544003013 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544003014 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 572544003015 ligand binding site [chemical binding]; other site 572544003016 flexible hinge region; other site 572544003017 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 572544003018 Protein of unknown function (DUF805); Region: DUF805; pfam05656 572544003019 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544003020 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 572544003021 metal binding site [ion binding]; metal-binding site 572544003022 nucleotidyl binding site; other site 572544003023 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 572544003024 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 572544003025 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 572544003026 FeS/SAM binding site; other site 572544003027 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 572544003028 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572544003029 Predicted transcriptional regulators [Transcription]; Region: COG1733 572544003030 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 572544003031 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 572544003032 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 572544003033 dimer interface [polypeptide binding]; other site 572544003034 ADP-ribose binding site [chemical binding]; other site 572544003035 active site 572544003036 nudix motif; other site 572544003037 metal binding site [ion binding]; metal-binding site 572544003038 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 572544003039 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 572544003040 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 572544003041 putative deacylase active site [active] 572544003042 phytoene desaturase; Region: crtI_fam; TIGR02734 572544003043 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544003044 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 572544003045 ABC1 family; Region: ABC1; cl17513 572544003046 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family 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: APH_ChoK_like; cd05120 572544003047 active site 572544003048 ATP binding site [chemical binding]; other site 572544003049 M48 family peptidase; Provisional; Region: PRK03001 572544003050 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 572544003051 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 572544003052 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 572544003053 dimer interface [polypeptide binding]; other site 572544003054 active site 572544003055 metal binding site [ion binding]; metal-binding site 572544003056 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 572544003057 active site 572544003058 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 572544003059 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544003060 CGGC domain; Region: CGGC; cl02356 572544003061 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544003062 ATP binding site [chemical binding]; other site 572544003063 G-X-G motif; other site 572544003064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544003065 Response regulator receiver domain; Region: Response_reg; pfam00072 572544003066 active site 572544003067 phosphorylation site [posttranslational modification] 572544003068 intermolecular recognition site; other site 572544003069 dimerization interface [polypeptide binding]; other site 572544003070 YcbB domain; Region: YcbB; pfam08664 572544003071 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 572544003072 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 572544003073 4Fe-4S binding domain; Region: Fer4; pfam00037 572544003074 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544003075 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544003076 Nitroreductase family; Region: Nitroreductase; pfam00881 572544003077 FMN binding site [chemical binding]; other site 572544003078 dimer interface [polypeptide binding]; other site 572544003079 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 572544003080 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 572544003081 dimer interface [polypeptide binding]; other site 572544003082 active site 572544003083 metal binding site [ion binding]; metal-binding site 572544003084 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 572544003085 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 572544003086 DNA binding residues [nucleotide binding] 572544003087 putative dimer interface [polypeptide binding]; other site 572544003088 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 572544003089 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 572544003090 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 572544003091 NAD binding site [chemical binding]; other site 572544003092 Phe binding site; other site 572544003093 butyrate kinase; Provisional; Region: PRK03011 572544003094 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 572544003095 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 572544003096 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 572544003097 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 572544003098 L-lactate permease; Region: Lactate_perm; cl00701 572544003099 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 572544003100 FAD binding domain; Region: FAD_binding_4; pfam01565 572544003101 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 572544003102 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 572544003103 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 572544003104 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 572544003105 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 572544003106 Ligand binding site [chemical binding]; other site 572544003107 Electron transfer flavoprotein domain; Region: ETF; pfam01012 572544003108 Transcriptional regulators [Transcription]; Region: FadR; COG2186 572544003109 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544003110 DNA-binding site [nucleotide binding]; DNA binding site 572544003111 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 572544003112 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 572544003113 metal-dependent hydrolase; Provisional; Region: PRK00685 572544003114 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 572544003115 Bacterial SH3 domain homologues; Region: SH3b; smart00287 572544003116 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 572544003117 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 572544003118 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 572544003119 ligand binding site [chemical binding]; other site 572544003120 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 572544003121 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 572544003122 trimer interface [polypeptide binding]; other site 572544003123 putative metal binding site [ion binding]; other site 572544003124 6-phosphofructokinase; Provisional; Region: PRK03202 572544003125 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 572544003126 active site 572544003127 ADP/pyrophosphate binding site [chemical binding]; other site 572544003128 dimerization interface [polypeptide binding]; other site 572544003129 allosteric effector site; other site 572544003130 fructose-1,6-bisphosphate binding site; other site 572544003131 HTH domain; Region: HTH_11; pfam08279 572544003132 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 572544003133 FOG: CBS domain [General function prediction only]; Region: COG0517 572544003134 PEP synthetase regulatory protein; Provisional; Region: PRK05339 572544003135 pyruvate phosphate dikinase; Provisional; Region: PRK09279 572544003136 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 572544003137 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 572544003138 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 572544003139 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 572544003140 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 572544003141 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 572544003142 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 572544003143 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 572544003144 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 572544003145 nucleotide binding site/active site [active] 572544003146 HIT family signature motif; other site 572544003147 catalytic residue [active] 572544003148 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 572544003149 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 572544003150 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 572544003151 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572544003152 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544003153 S-adenosylmethionine binding site [chemical binding]; other site 572544003154 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 572544003155 PLD-like domain; Region: PLDc_2; pfam13091 572544003156 putative active site [active] 572544003157 catalytic site [active] 572544003158 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 572544003159 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 572544003160 ATP binding site [chemical binding]; other site 572544003161 putative Mg++ binding site [ion binding]; other site 572544003162 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 572544003163 nucleotide binding region [chemical binding]; other site 572544003164 ATP-binding site [chemical binding]; other site 572544003165 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 572544003166 active site 572544003167 8-oxo-dGMP binding site [chemical binding]; other site 572544003168 nudix motif; other site 572544003169 metal binding site [ion binding]; metal-binding site 572544003170 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 572544003171 active site 572544003172 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 572544003173 active site 572544003174 Fic family protein [Function unknown]; Region: COG3177 572544003175 Fic/DOC family; Region: Fic; pfam02661 572544003176 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 572544003177 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 572544003178 active site 572544003179 metal binding site [ion binding]; metal-binding site 572544003180 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 572544003181 Baseplate J-like protein; Region: Baseplate_J; pfam04865 572544003182 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 572544003183 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 572544003184 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 572544003185 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 572544003186 Phage Tail Protein X; Region: Phage_tail_X; cl02088 572544003187 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 572544003188 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 572544003189 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 572544003190 Phage tail tube protein FII; Region: Phage_tube; cl01390 572544003191 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 572544003192 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 572544003193 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 572544003194 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 572544003195 oligomer interface [polypeptide binding]; other site 572544003196 Clp protease; Region: CLP_protease; pfam00574 572544003197 active site residues [active] 572544003198 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 572544003199 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 572544003200 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 572544003201 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 572544003202 ParB-like nuclease domain; Region: ParBc; pfam02195 572544003203 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 572544003204 DNA methylase; Region: N6_N4_Mtase; pfam01555 572544003205 Uncharacterized conserved protein [Function unknown]; Region: COG3586 572544003206 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 572544003207 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 572544003208 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 572544003209 ATP binding site [chemical binding]; other site 572544003210 putative Mg++ binding site [ion binding]; other site 572544003211 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 572544003212 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572544003213 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 572544003214 HsdM N-terminal domain; Region: HsdM_N; pfam12161 572544003215 Methyltransferase domain; Region: Methyltransf_26; pfam13659 572544003216 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 572544003217 non-specific DNA binding site [nucleotide binding]; other site 572544003218 salt bridge; other site 572544003219 sequence-specific DNA binding site [nucleotide binding]; other site 572544003220 Predicted transcriptional regulator [Transcription]; Region: COG2932 572544003221 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 572544003222 Catalytic site [active] 572544003223 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 572544003224 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 572544003225 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; cd00338 572544003226 catalytic residues [active] 572544003227 catalytic nucleophile [active] 572544003228 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 572544003229 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572544003230 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 572544003231 active site 572544003232 tetramer interface [polypeptide binding]; other site 572544003233 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 572544003234 catalytic core [active] 572544003235 Peptidase family M48; Region: Peptidase_M48; pfam01435 572544003236 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 572544003237 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 572544003238 putative ligand binding site [chemical binding]; other site 572544003239 putative NAD binding site [chemical binding]; other site 572544003240 catalytic site [active] 572544003241 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 572544003242 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 572544003243 Ligand binding site; other site 572544003244 oligomer interface; other site 572544003245 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 572544003246 active site 572544003247 motif I; other site 572544003248 motif II; other site 572544003249 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 572544003250 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 572544003251 dimer interface [polypeptide binding]; other site 572544003252 active site 572544003253 metal binding site [ion binding]; metal-binding site 572544003254 hybrid cluster protein; Provisional; Region: PRK05290 572544003255 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 572544003256 ACS interaction site; other site 572544003257 CODH interaction site; other site 572544003258 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 572544003259 hybrid metal cluster; other site 572544003260 Protein of unknown function (DUF452); Region: DUF452; cl01062 572544003261 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 572544003262 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 572544003263 active site 572544003264 (T/H)XGH motif; other site 572544003265 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 572544003266 active site 572544003267 phosphorylation site [posttranslational modification] 572544003268 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 572544003269 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 572544003270 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 572544003271 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 572544003272 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 572544003273 Walker A/P-loop; other site 572544003274 ATP binding site [chemical binding]; other site 572544003275 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 572544003276 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 572544003277 Q-loop/lid; other site 572544003278 ABC transporter signature motif; other site 572544003279 Walker B; other site 572544003280 D-loop; other site 572544003281 H-loop/switch region; other site 572544003282 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 572544003283 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 572544003284 Walker A motif; other site 572544003285 ATP binding site [chemical binding]; other site 572544003286 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 572544003287 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 572544003288 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 572544003289 putative active site [active] 572544003290 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 572544003291 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 572544003292 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 572544003293 Ligand binding site; other site 572544003294 metal-binding site 572544003295 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 572544003296 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 572544003297 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 572544003298 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 572544003299 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 572544003300 catalytic loop [active] 572544003301 iron binding site [ion binding]; other site 572544003302 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 572544003303 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 572544003304 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 572544003305 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 572544003306 putative MPT binding site; other site 572544003307 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 572544003308 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 572544003309 XdhC Rossmann domain; Region: XdhC_C; pfam13478 572544003310 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544003311 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 572544003312 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 572544003313 dimer interface [polypeptide binding]; other site 572544003314 PYR/PP interface [polypeptide binding]; other site 572544003315 TPP binding site [chemical binding]; other site 572544003316 substrate binding site [chemical binding]; other site 572544003317 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572544003318 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 572544003319 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 572544003320 TPP-binding site [chemical binding]; other site 572544003321 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 572544003322 xanthine permease; Region: pbuX; TIGR03173 572544003323 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 572544003324 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544003325 DNA-binding site [nucleotide binding]; DNA binding site 572544003326 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 572544003327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544003328 homodimer interface [polypeptide binding]; other site 572544003329 catalytic residue [active] 572544003330 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 572544003331 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 572544003332 active site 572544003333 multimer interface [polypeptide binding]; other site 572544003334 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 572544003335 predicted active site [active] 572544003336 catalytic triad [active] 572544003337 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572544003338 Peptidase family M23; Region: Peptidase_M23; pfam01551 572544003339 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 572544003340 ZIP Zinc transporter; Region: Zip; pfam02535 572544003341 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 572544003342 active site 572544003343 dimerization interface [polypeptide binding]; other site 572544003344 ribonuclease PH; Reviewed; Region: rph; PRK00173 572544003345 Ribonuclease PH; Region: RNase_PH_bact; cd11362 572544003346 hexamer interface [polypeptide binding]; other site 572544003347 active site 572544003348 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572544003349 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572544003350 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 572544003351 Walker A/P-loop; other site 572544003352 ATP binding site [chemical binding]; other site 572544003353 Q-loop/lid; other site 572544003354 ABC transporter signature motif; other site 572544003355 Walker B; other site 572544003356 D-loop; other site 572544003357 H-loop/switch region; other site 572544003358 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 572544003359 Lipid-A-disaccharide synthetase; Region: LpxB; pfam02684 572544003360 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 572544003361 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 572544003362 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 572544003363 active site 572544003364 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 572544003365 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 572544003366 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 572544003367 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 572544003368 Part of AAA domain; Region: AAA_19; pfam13245 572544003369 Family description; Region: UvrD_C_2; pfam13538 572544003370 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 572544003371 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 572544003372 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 572544003373 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 572544003374 MgtE intracellular N domain; Region: MgtE_N; pfam03448 572544003375 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 572544003376 Divalent cation transporter; Region: MgtE; pfam01769 572544003377 TIGR03545 family protein; Region: TIGR03545 572544003378 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 572544003379 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 572544003380 RNA binding surface [nucleotide binding]; other site 572544003381 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 572544003382 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 572544003383 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 572544003384 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 572544003385 Cl- selectivity filter; other site 572544003386 Cl- binding residues [ion binding]; other site 572544003387 pore gating glutamate residue; other site 572544003388 dimer interface [polypeptide binding]; other site 572544003389 H+/Cl- coupling transport residue; other site 572544003390 TrkA-C domain; Region: TrkA_C; pfam02080 572544003391 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 572544003392 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 572544003393 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 572544003394 PYR/PP interface [polypeptide binding]; other site 572544003395 dimer interface [polypeptide binding]; other site 572544003396 TPP binding site [chemical binding]; other site 572544003397 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572544003398 transketolase; Reviewed; Region: PRK05899 572544003399 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 572544003400 TPP-binding site [chemical binding]; other site 572544003401 dimer interface [polypeptide binding]; other site 572544003402 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 572544003403 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 572544003404 ATP binding site [chemical binding]; other site 572544003405 putative Mg++ binding site [ion binding]; other site 572544003406 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 572544003407 nucleotide binding region [chemical binding]; other site 572544003408 ATP-binding site [chemical binding]; other site 572544003409 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 572544003410 HRDC domain; Region: HRDC; pfam00570 572544003411 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 572544003412 FeS/SAM binding site; other site 572544003413 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 572544003414 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 572544003415 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572544003416 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572544003417 HlyD family secretion protein; Region: HlyD_3; pfam13437 572544003418 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 572544003419 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572544003420 MarR family; Region: MarR_2; pfam12802 572544003421 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 572544003422 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 572544003423 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 572544003424 active site turn [active] 572544003425 phosphorylation site [posttranslational modification] 572544003426 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 572544003427 HPr interaction site; other site 572544003428 glycerol kinase (GK) interaction site [polypeptide binding]; other site 572544003429 active site 572544003430 phosphorylation site [posttranslational modification] 572544003431 Homeodomain-like domain; Region: HTH_32; pfam13565 572544003432 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 572544003433 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 572544003434 HPr interaction site; other site 572544003435 glycerol kinase (GK) interaction site [polypeptide binding]; other site 572544003436 active site 572544003437 phosphorylation site [posttranslational modification] 572544003438 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 572544003439 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 572544003440 active site 572544003441 dimer interface [polypeptide binding]; other site 572544003442 effector binding site; other site 572544003443 TSCPD domain; Region: TSCPD; cl14834 572544003444 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 572544003445 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 572544003446 active site residue [active] 572544003447 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 572544003448 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 572544003449 Na binding site [ion binding]; other site 572544003450 Protein of unknown function (DUF997); Region: DUF997; pfam06196 572544003451 MarR family; Region: MarR_2; cl17246 572544003452 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572544003453 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 572544003454 tetramerization interface [polypeptide binding]; other site 572544003455 active site 572544003456 pantoate--beta-alanine ligase; Region: panC; TIGR00018 572544003457 Pantoate-beta-alanine ligase; Region: PanC; cd00560 572544003458 active site 572544003459 ATP-binding site [chemical binding]; other site 572544003460 pantoate-binding site; other site 572544003461 HXXH motif; other site 572544003462 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 572544003463 oligomerization interface [polypeptide binding]; other site 572544003464 active site 572544003465 metal binding site [ion binding]; metal-binding site 572544003466 Rossmann-like domain; Region: Rossmann-like; pfam10727 572544003467 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 572544003468 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572544003469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572544003470 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 572544003471 dimerization interface [polypeptide binding]; other site 572544003472 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 572544003473 aspartate racemase; Region: asp_race; TIGR00035 572544003474 Homoserine O-succinyltransferase; Region: HTS; pfam04204 572544003475 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 572544003476 proposed active site lysine [active] 572544003477 conserved cys residue [active] 572544003478 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 572544003479 hypothetical protein; Provisional; Region: PRK05463 572544003480 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 572544003481 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 572544003482 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 572544003483 Transcriptional regulator [Transcription]; Region: IclR; COG1414 572544003484 Bacterial transcriptional regulator; Region: IclR; pfam01614 572544003485 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 572544003486 putative active site [active] 572544003487 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 572544003488 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 572544003489 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 572544003490 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 572544003491 Carbon starvation protein CstA; Region: CstA; pfam02554 572544003492 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 572544003493 ketol-acid reductoisomerase; Provisional; Region: PRK05479 572544003494 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 572544003495 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 572544003496 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 572544003497 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 572544003498 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 572544003499 PYR/PP interface [polypeptide binding]; other site 572544003500 dimer interface [polypeptide binding]; other site 572544003501 TPP binding site [chemical binding]; other site 572544003502 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 572544003503 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 572544003504 TPP-binding site [chemical binding]; other site 572544003505 dimer interface [polypeptide binding]; other site 572544003506 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 572544003507 6-phosphogluconate dehydratase; Region: edd; TIGR01196 572544003508 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 572544003509 tartrate dehydrogenase; Region: TTC; TIGR02089 572544003510 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 572544003511 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 572544003512 substrate binding site [chemical binding]; other site 572544003513 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 572544003514 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 572544003515 substrate binding site [chemical binding]; other site 572544003516 ligand binding site [chemical binding]; other site 572544003517 2-isopropylmalate synthase; Validated; Region: PRK00915 572544003518 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 572544003519 active site 572544003520 catalytic residues [active] 572544003521 metal binding site [ion binding]; metal-binding site 572544003522 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 572544003523 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572544003524 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572544003525 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 572544003526 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 572544003527 ligand binding site [chemical binding]; other site 572544003528 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 572544003529 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572544003530 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 572544003531 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 572544003532 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 572544003533 Flavoprotein; Region: Flavoprotein; pfam02441 572544003534 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 572544003535 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 572544003536 DNA-binding site [nucleotide binding]; DNA binding site 572544003537 RNA-binding motif; other site 572544003538 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 572544003539 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 572544003540 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 572544003541 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544003542 S-adenosylmethionine binding site [chemical binding]; other site 572544003543 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 572544003544 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544003545 S-adenosylmethionine binding site [chemical binding]; other site 572544003546 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572544003547 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 572544003548 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 572544003549 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 572544003550 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 572544003551 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 572544003552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 572544003553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 572544003554 MORN repeat; Region: MORN; cl14787 572544003555 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 572544003556 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 572544003557 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 572544003558 thiS-thiF/thiG interaction site; other site 572544003559 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 572544003560 ThiS interaction site; other site 572544003561 putative active site [active] 572544003562 tetramer interface [polypeptide binding]; other site 572544003563 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 572544003564 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 572544003565 FeS/SAM binding site; other site 572544003566 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 572544003567 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 572544003568 ATP binding site [chemical binding]; other site 572544003569 substrate interface [chemical binding]; other site 572544003570 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 572544003571 thiamine phosphate binding site [chemical binding]; other site 572544003572 active site 572544003573 pyrophosphate binding site [ion binding]; other site 572544003574 Septum formation topological specificity factor MinE; Region: MinE; cl00538 572544003575 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 572544003576 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 572544003577 Switch I; other site 572544003578 Switch II; other site 572544003579 septum formation inhibitor; Reviewed; Region: minC; PRK00513 572544003580 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 572544003581 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 572544003582 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 572544003583 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 572544003584 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 572544003585 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544003586 dimer interface [polypeptide binding]; other site 572544003587 conserved gate region; other site 572544003588 ABC-ATPase subunit interface; other site 572544003589 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 572544003590 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 572544003591 Walker A/P-loop; other site 572544003592 ATP binding site [chemical binding]; other site 572544003593 Q-loop/lid; other site 572544003594 ABC transporter signature motif; other site 572544003595 Walker B; other site 572544003596 D-loop; other site 572544003597 H-loop/switch region; other site 572544003598 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 572544003599 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 572544003600 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572544003601 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 572544003602 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 572544003603 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 572544003604 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 572544003605 putative active site [active] 572544003606 putative metal binding site [ion binding]; other site 572544003607 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 572544003608 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544003609 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544003610 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572544003611 active site 572544003612 NAD binding site [chemical binding]; other site 572544003613 Acylphosphatase; Region: Acylphosphatase; pfam00708 572544003614 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 572544003615 active site 572544003616 dimer interface [polypeptide binding]; other site 572544003617 metal binding site [ion binding]; metal-binding site 572544003618 exopolyphosphatase; Region: exo_poly_only; TIGR03706 572544003619 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 572544003620 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 572544003621 active site 572544003622 catalytic residues [active] 572544003623 S-adenosylmethionine synthetase; Validated; Region: PRK05250 572544003624 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 572544003625 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 572544003626 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 572544003627 spermidine synthase; Provisional; Region: PRK00811 572544003628 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544003629 S-adenosylmethionine binding site [chemical binding]; other site 572544003630 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 572544003631 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 572544003632 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 572544003633 non-specific DNA binding site [nucleotide binding]; other site 572544003634 salt bridge; other site 572544003635 sequence-specific DNA binding site [nucleotide binding]; other site 572544003636 Cupin domain; Region: Cupin_2; pfam07883 572544003637 FMN-binding domain; Region: FMN_bind; cl01081 572544003638 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 572544003639 Protein of unknown function (DUF503); Region: DUF503; cl00669 572544003640 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 572544003641 dimer interface [polypeptide binding]; other site 572544003642 catalytic triad [active] 572544003643 peroxidatic and resolving cysteines [active] 572544003644 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 572544003645 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 572544003646 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 572544003647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572544003648 NAD(P) binding site [chemical binding]; other site 572544003649 active site 572544003650 shikimate kinase; Reviewed; Region: aroK; PRK00131 572544003651 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 572544003652 ADP binding site [chemical binding]; other site 572544003653 magnesium binding site [ion binding]; other site 572544003654 putative shikimate binding site; other site 572544003655 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 572544003656 dimer interface [polypeptide binding]; other site 572544003657 [2Fe-2S] cluster binding site [ion binding]; other site 572544003658 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544003659 4Fe-4S binding domain; Region: Fer4; pfam00037 572544003660 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572544003661 Putative Fe-S cluster; Region: FeS; cl17515 572544003662 PAS domain S-box; Region: sensory_box; TIGR00229 572544003663 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 572544003664 putative active site [active] 572544003665 heme pocket [chemical binding]; other site 572544003666 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 572544003667 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 572544003668 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 572544003669 putative dimer interface [polypeptide binding]; other site 572544003670 [2Fe-2S] cluster binding site [ion binding]; other site 572544003671 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 572544003672 SLBB domain; Region: SLBB; pfam10531 572544003673 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 572544003674 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 572544003675 catalytic loop [active] 572544003676 iron binding site [ion binding]; other site 572544003677 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 572544003678 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 572544003679 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572544003680 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 572544003681 cobyric acid synthase; Provisional; Region: PRK00784 572544003682 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 572544003683 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 572544003684 catalytic triad [active] 572544003685 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 572544003686 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 572544003687 dimerization interface [polypeptide binding]; other site 572544003688 putative ATP binding site [chemical binding]; other site 572544003689 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 572544003690 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572544003691 catalytic residue [active] 572544003692 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 572544003693 Protein export membrane protein; Region: SecD_SecF; cl14618 572544003694 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572544003695 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 572544003696 HlyD family secretion protein; Region: HlyD_3; pfam13437 572544003697 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572544003698 VacJ like lipoprotein; Region: VacJ; cl01073 572544003699 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 572544003700 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 572544003701 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 572544003702 putative catalytic cysteine [active] 572544003703 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 572544003704 putative active site [active] 572544003705 metal binding site [ion binding]; metal-binding site 572544003706 threonine dehydratase; Provisional; Region: PRK08198 572544003707 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 572544003708 tetramer interface [polypeptide binding]; other site 572544003709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544003710 catalytic residue [active] 572544003711 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 572544003712 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572544003713 EamA-like transporter family; Region: EamA; pfam00892 572544003714 EamA-like transporter family; Region: EamA; pfam00892 572544003715 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 572544003716 FMN binding site [chemical binding]; other site 572544003717 dimer interface [polypeptide binding]; other site 572544003718 heat shock protein 90; Provisional; Region: PRK05218 572544003719 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544003720 ATP binding site [chemical binding]; other site 572544003721 Mg2+ binding site [ion binding]; other site 572544003722 G-X-G motif; other site 572544003723 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 572544003724 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 572544003725 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 572544003726 peptide binding site [polypeptide binding]; other site 572544003727 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572544003728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544003729 dimer interface [polypeptide binding]; other site 572544003730 conserved gate region; other site 572544003731 putative PBP binding loops; other site 572544003732 ABC-ATPase subunit interface; other site 572544003733 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 572544003734 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544003735 dimer interface [polypeptide binding]; other site 572544003736 conserved gate region; other site 572544003737 putative PBP binding loops; other site 572544003738 ABC-ATPase subunit interface; other site 572544003739 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 572544003740 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572544003741 Walker A/P-loop; other site 572544003742 ATP binding site [chemical binding]; other site 572544003743 Q-loop/lid; other site 572544003744 ABC transporter signature motif; other site 572544003745 Walker B; other site 572544003746 D-loop; other site 572544003747 H-loop/switch region; other site 572544003748 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 572544003749 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 572544003750 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572544003751 Walker A/P-loop; other site 572544003752 ATP binding site [chemical binding]; other site 572544003753 Q-loop/lid; other site 572544003754 ABC transporter signature motif; other site 572544003755 Walker B; other site 572544003756 D-loop; other site 572544003757 H-loop/switch region; other site 572544003758 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 572544003759 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572544003760 FtsX-like permease family; Region: FtsX; pfam02687 572544003761 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 572544003762 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 572544003763 FtsX-like permease family; Region: FtsX; pfam02687 572544003764 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572544003765 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 572544003766 Walker A/P-loop; other site 572544003767 ATP binding site [chemical binding]; other site 572544003768 Q-loop/lid; other site 572544003769 ABC transporter signature motif; other site 572544003770 Walker B; other site 572544003771 D-loop; other site 572544003772 H-loop/switch region; other site 572544003773 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 572544003774 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 572544003775 Predicted membrane protein [Function unknown]; Region: COG4267 572544003776 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_3; cd03813 572544003777 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544003778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4878 572544003779 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG4878; cd10924 572544003780 NodB motif; other site 572544003781 putative active site [active] 572544003782 putative catalytic site [active] 572544003783 putative Zn binding site [ion binding]; other site 572544003784 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 572544003785 GAF domain; Region: GAF_3; pfam13492 572544003786 TM1410 hypothetical-related protein; Region: DUF297; cl00997 572544003787 TM1410 hypothetical-related protein; Region: DUF297; cl00997 572544003788 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 572544003789 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 572544003790 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 572544003791 active site 572544003792 P-loop; other site 572544003793 phosphorylation site [posttranslational modification] 572544003794 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 572544003795 active site 572544003796 phosphorylation site [posttranslational modification] 572544003797 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 572544003798 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 572544003799 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 572544003800 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 572544003801 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 572544003802 glutaminase active site [active] 572544003803 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 572544003804 dimer interface [polypeptide binding]; other site 572544003805 active site 572544003806 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 572544003807 dimer interface [polypeptide binding]; other site 572544003808 active site 572544003809 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 572544003810 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 572544003811 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 572544003812 active site 572544003813 P-loop; other site 572544003814 phosphorylation site [posttranslational modification] 572544003815 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 572544003816 active site 572544003817 phosphorylation site [posttranslational modification] 572544003818 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 572544003819 HTH domain; Region: HTH_11; pfam08279 572544003820 PRD domain; Region: PRD; pfam00874 572544003821 PRD domain; Region: PRD; pfam00874 572544003822 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 572544003823 active site 572544003824 P-loop; other site 572544003825 phosphorylation site [posttranslational modification] 572544003826 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 572544003827 active site 572544003828 phosphorylation site [posttranslational modification] 572544003829 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 572544003830 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 572544003831 active site 572544003832 nucleophile elbow; other site 572544003833 Surface antigen; Region: Bac_surface_Ag; pfam01103 572544003834 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 572544003835 DHH family; Region: DHH; pfam01368 572544003836 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 572544003837 FOG: CBS domain [General function prediction only]; Region: COG0517 572544003838 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 572544003839 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 572544003840 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 572544003841 active site 572544003842 NTP binding site [chemical binding]; other site 572544003843 metal binding triad [ion binding]; metal-binding site 572544003844 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 572544003845 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 572544003846 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 572544003847 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 572544003848 Peptidase family U32; Region: Peptidase_U32; pfam01136 572544003849 replicative DNA helicase; Region: DnaB; TIGR00665 572544003850 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 572544003851 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 572544003852 Walker A motif; other site 572544003853 ATP binding site [chemical binding]; other site 572544003854 Walker B motif; other site 572544003855 DNA binding loops [nucleotide binding] 572544003856 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 572544003857 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 572544003858 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 572544003859 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 572544003860 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 572544003861 Walker A motif; other site 572544003862 ATP binding site [chemical binding]; other site 572544003863 Walker B motif; other site 572544003864 arginine finger; other site 572544003865 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544003866 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 572544003867 active site 572544003868 phosphorylation site [posttranslational modification] 572544003869 intermolecular recognition site; other site 572544003870 dimerization interface [polypeptide binding]; other site 572544003871 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 572544003872 Walker A motif; other site 572544003873 ATP binding site [chemical binding]; other site 572544003874 Walker B motif; other site 572544003875 arginine finger; other site 572544003876 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 572544003877 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 572544003878 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 572544003879 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 572544003880 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 572544003881 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 572544003882 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 572544003883 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 572544003884 Protein of unknown function DUF116; Region: DUF116; pfam01976 572544003885 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 572544003886 DNA polymerase III subunit beta; Validated; Region: PRK05643 572544003887 putative DNA binding surface [nucleotide binding]; other site 572544003888 dimer interface [polypeptide binding]; other site 572544003889 beta-clamp/clamp loader binding surface; other site 572544003890 beta-clamp/translesion DNA polymerase binding surface; other site 572544003891 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 572544003892 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572544003893 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 572544003894 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 572544003895 DNA binding residues [nucleotide binding] 572544003896 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 572544003897 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 572544003898 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 572544003899 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 572544003900 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 572544003901 TRAM domain; Region: TRAM; cl01282 572544003902 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544003903 S-adenosylmethionine binding site [chemical binding]; other site 572544003904 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 572544003905 MraW methylase family; Region: Methyltransf_5; pfam01795 572544003906 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 572544003907 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 572544003908 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544003909 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544003910 metal binding site [ion binding]; metal-binding site 572544003911 active site 572544003912 I-site; other site 572544003913 YGGT family; Region: YGGT; pfam02325 572544003914 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 572544003915 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 572544003916 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 572544003917 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 572544003918 FeS/SAM binding site; other site 572544003919 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 572544003920 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 572544003921 RNase E interface [polypeptide binding]; other site 572544003922 trimer interface [polypeptide binding]; other site 572544003923 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 572544003924 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 572544003925 RNase E interface [polypeptide binding]; other site 572544003926 trimer interface [polypeptide binding]; other site 572544003927 active site 572544003928 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 572544003929 putative nucleic acid binding region [nucleotide binding]; other site 572544003930 G-X-X-G motif; other site 572544003931 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 572544003932 RNA binding site [nucleotide binding]; other site 572544003933 domain interface; other site 572544003934 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 572544003935 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 572544003936 active site 572544003937 trimer interface [polypeptide binding]; other site 572544003938 allosteric site; other site 572544003939 active site lid [active] 572544003940 hexamer (dimer of trimers) interface [polypeptide binding]; other site 572544003941 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 572544003942 amphipathic channel; other site 572544003943 Asn-Pro-Ala signature motifs; other site 572544003944 Dehydratase medium subunit; Region: Dehydratase_MU; cl17703 572544003945 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 572544003946 propanediol dehydratase small subunit; Provisional; Region: pduE; PRK15443 572544003947 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 572544003948 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 572544003949 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 572544003950 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 572544003951 alpha-beta subunit interface [polypeptide binding]; other site 572544003952 alpha-gamma subunit interface [polypeptide binding]; other site 572544003953 active site 572544003954 substrate and K+ binding site; other site 572544003955 K+ binding site [ion binding]; other site 572544003956 cobalamin binding site [chemical binding]; other site 572544003957 Domain of unknown function (DUF336); Region: DUF336; pfam03928 572544003958 Sensory domain found in PocR; Region: PocR; pfam10114 572544003959 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 572544003960 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572544003961 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572544003962 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572544003963 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 572544003964 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544003965 dimer interface [polypeptide binding]; other site 572544003966 active site 572544003967 metal binding site [ion binding]; metal-binding site 572544003968 Predicted membrane protein [Function unknown]; Region: COG1971 572544003969 Domain of unknown function DUF; Region: DUF204; pfam02659 572544003970 MOSC domain; Region: MOSC; pfam03473 572544003971 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 572544003972 trimer interface [polypeptide binding]; other site 572544003973 dimer interface [polypeptide binding]; other site 572544003974 putative active site [active] 572544003975 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 572544003976 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 572544003977 FeS/SAM binding site; other site 572544003978 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 572544003979 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 572544003980 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 572544003981 dimer interface [polypeptide binding]; other site 572544003982 putative functional site; other site 572544003983 putative MPT binding site; other site 572544003984 PBP superfamily domain; Region: PBP_like; pfam12727 572544003985 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 572544003986 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 572544003987 dimer interface [polypeptide binding]; other site 572544003988 putative functional site; other site 572544003989 putative MPT binding site; other site 572544003990 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572544003991 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544003992 Walker A/P-loop; other site 572544003993 ATP binding site [chemical binding]; other site 572544003994 Q-loop/lid; other site 572544003995 ABC transporter signature motif; other site 572544003996 Walker B; other site 572544003997 D-loop; other site 572544003998 H-loop/switch region; other site 572544003999 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544004000 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 572544004001 PBP superfamily domain; Region: PBP_like_2; pfam12849 572544004002 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 572544004003 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 572544004004 ATP binding site [chemical binding]; other site 572544004005 substrate interface [chemical binding]; other site 572544004006 ThiS family; Region: ThiS; pfam02597 572544004007 charged pocket; other site 572544004008 hydrophobic patch; other site 572544004009 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 572544004010 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 572544004011 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 572544004012 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 572544004013 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 572544004014 HD domain; Region: HD_4; pfam13328 572544004015 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 572544004016 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 572544004017 motif II; other site 572544004018 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572544004019 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572544004020 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 572544004021 Walker A/P-loop; other site 572544004022 ATP binding site [chemical binding]; other site 572544004023 Q-loop/lid; other site 572544004024 ABC transporter signature motif; other site 572544004025 Walker B; other site 572544004026 D-loop; other site 572544004027 H-loop/switch region; other site 572544004028 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 572544004029 Domain of unknown function (DUF814); Region: DUF814; pfam05670 572544004030 Transcriptional regulators [Transcription]; Region: MarR; COG1846 572544004031 MarR family; Region: MarR_2; pfam12802 572544004032 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 572544004033 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 572544004034 substrate binding site [chemical binding]; other site 572544004035 hexamer interface [polypeptide binding]; other site 572544004036 metal binding site [ion binding]; metal-binding site 572544004037 Predicted GTPases [General function prediction only]; Region: COG1162 572544004038 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 572544004039 RNA binding site [nucleotide binding]; other site 572544004040 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 572544004041 GTPase/Zn-binding domain interface [polypeptide binding]; other site 572544004042 GTP/Mg2+ binding site [chemical binding]; other site 572544004043 G4 box; other site 572544004044 G5 box; other site 572544004045 G1 box; other site 572544004046 Switch I region; other site 572544004047 G2 box; other site 572544004048 G3 box; other site 572544004049 Switch II region; other site 572544004050 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 572544004051 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 572544004052 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 572544004053 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572544004054 active site 572544004055 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572544004056 active site 572544004057 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 572544004058 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 572544004059 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 572544004060 active site 572544004061 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 572544004062 KH domain; Region: KH_4; pfam13083 572544004063 G-X-X-G motif; other site 572544004064 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 572544004065 RimM N-terminal domain; Region: RimM; pfam01782 572544004066 PRC-barrel domain; Region: PRC; pfam05239 572544004067 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 572544004068 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 572544004069 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 572544004070 trimer interface [polypeptide binding]; other site 572544004071 putative metal binding site [ion binding]; other site 572544004072 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 572544004073 DNA polymerase III PolC; Validated; Region: polC; PRK00448 572544004074 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 572544004075 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 572544004076 generic binding surface II; other site 572544004077 generic binding surface I; other site 572544004078 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 572544004079 active site 572544004080 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 572544004081 active site 572544004082 catalytic site [active] 572544004083 substrate binding site [chemical binding]; other site 572544004084 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 572544004085 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 572544004086 Rubredoxin; Region: Rubredoxin; pfam00301 572544004087 iron binding site [ion binding]; other site 572544004088 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 572544004089 16S/18S rRNA binding site [nucleotide binding]; other site 572544004090 S13e-L30e interaction site [polypeptide binding]; other site 572544004091 25S rRNA binding site [nucleotide binding]; other site 572544004092 FtsH Extracellular; Region: FtsH_ext; pfam06480 572544004093 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 572544004094 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 572544004095 Walker A motif; other site 572544004096 ATP binding site [chemical binding]; other site 572544004097 Walker B motif; other site 572544004098 arginine finger; other site 572544004099 Peptidase family M41; Region: Peptidase_M41; pfam01434 572544004100 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 572544004101 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 572544004102 Ligand Binding Site [chemical binding]; other site 572544004103 TilS substrate C-terminal domain; Region: TilS_C; smart00977 572544004104 Stage II sporulation protein; Region: SpoIID; pfam08486 572544004105 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 572544004106 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 572544004107 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 572544004108 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 572544004109 YceG-like family; Region: YceG; pfam02618 572544004110 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 572544004111 dimerization interface [polypeptide binding]; other site 572544004112 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 572544004113 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 572544004114 ATP binding site [chemical binding]; other site 572544004115 Mg++ binding site [ion binding]; other site 572544004116 motif III; other site 572544004117 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 572544004118 nucleotide binding region [chemical binding]; other site 572544004119 ATP-binding site [chemical binding]; other site 572544004120 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 572544004121 RNA binding site [nucleotide binding]; other site 572544004122 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 572544004123 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 572544004124 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 572544004125 PhoU domain; Region: PhoU; pfam01895 572544004126 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 572544004127 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; cd03440 572544004128 active site 2 [active] 572544004129 active site 1 [active] 572544004130 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 572544004131 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572544004132 active site 572544004133 metal binding site [ion binding]; metal-binding site 572544004134 homotetramer interface [polypeptide binding]; other site 572544004135 Thiamine pyrophosphokinase; Region: TPK; cd07995 572544004136 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 572544004137 active site 572544004138 dimerization interface [polypeptide binding]; other site 572544004139 thiamine binding site [chemical binding]; other site 572544004140 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 572544004141 putative active site [active] 572544004142 putative catalytic site [active] 572544004143 putative Mg binding site IVb [ion binding]; other site 572544004144 putative phosphate binding site [ion binding]; other site 572544004145 putative DNA binding site [nucleotide binding]; other site 572544004146 putative Mg binding site IVa [ion binding]; other site 572544004147 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 572544004148 nucleophilic elbow; other site 572544004149 catalytic triad; other site 572544004150 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 572544004151 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 572544004152 active site 572544004153 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 572544004154 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 572544004155 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 572544004156 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544004157 Zn2+ binding site [ion binding]; other site 572544004158 Mg2+ binding site [ion binding]; other site 572544004159 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 572544004160 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 572544004161 DEAD/DEAH box helicase; Region: DEAD; pfam00270 572544004162 ATP binding site [chemical binding]; other site 572544004163 DEAD_2; Region: DEAD_2; pfam06733 572544004164 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 572544004165 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 572544004166 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 572544004167 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 572544004168 active site 572544004169 dimerization interface [polypeptide binding]; other site 572544004170 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 572544004171 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 572544004172 metal-binding site [ion binding] 572544004173 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 572544004174 Heavy-metal-associated domain; Region: HMA; pfam00403 572544004175 metal-binding site [ion binding] 572544004176 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572544004177 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 572544004178 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 572544004179 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544004180 dimer interface [polypeptide binding]; other site 572544004181 conserved gate region; other site 572544004182 putative PBP binding loops; other site 572544004183 ABC-ATPase subunit interface; other site 572544004184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544004185 ABC-ATPase subunit interface; other site 572544004186 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 572544004187 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 572544004188 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 572544004189 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 572544004190 nucleotide binding site [chemical binding]; other site 572544004191 SulA interaction site; other site 572544004192 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 572544004193 dimerization interface [polypeptide binding]; other site 572544004194 putative DNA binding site [nucleotide binding]; other site 572544004195 putative Zn2+ binding site [ion binding]; other site 572544004196 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 572544004197 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 572544004198 putative active site [active] 572544004199 Septum formation initiator; Region: DivIC; cl17659 572544004200 Predicted membrane protein [Function unknown]; Region: COG2035 572544004201 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 572544004202 Dehydroquinase class II; Region: DHquinase_II; pfam01220 572544004203 trimer interface [polypeptide binding]; other site 572544004204 active site 572544004205 dimer interface [polypeptide binding]; other site 572544004206 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 572544004207 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 572544004208 ATP cone domain; Region: ATP-cone; pfam03477 572544004209 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 572544004210 active site 572544004211 phosphorylation site [posttranslational modification] 572544004212 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 572544004213 Recombination protein O N terminal; Region: RecO_N; pfam11967 572544004214 Recombination protein O C terminal; Region: RecO_C; pfam02565 572544004215 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 572544004216 rod shape-determining protein MreC; Provisional; Region: PRK13922 572544004217 rod shape-determining protein MreC; Region: MreC; pfam04085 572544004218 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 572544004219 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 572544004220 ring oligomerisation interface [polypeptide binding]; other site 572544004221 ATP/Mg binding site [chemical binding]; other site 572544004222 stacking interactions; other site 572544004223 hinge regions; other site 572544004224 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 572544004225 oligomerisation interface [polypeptide binding]; other site 572544004226 mobile loop; other site 572544004227 roof hairpin; other site 572544004228 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 572544004229 signal recognition particle protein; Provisional; Region: PRK10867 572544004230 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 572544004231 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 572544004232 P loop; other site 572544004233 GTP binding site [chemical binding]; other site 572544004234 Signal peptide binding domain; Region: SRP_SPB; pfam02978 572544004235 putative DNA-binding protein; Validated; Region: PRK00118 572544004236 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 572544004237 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 572544004238 GDP-binding site [chemical binding]; other site 572544004239 ACT binding site; other site 572544004240 IMP binding site; other site 572544004241 Putative methyltransferase; Region: Methyltransf_4; cl17290 572544004242 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 572544004243 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 572544004244 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 572544004245 NodB motif; other site 572544004246 putative active site [active] 572544004247 putative catalytic site [active] 572544004248 Zn binding site [ion binding]; other site 572544004249 cytidylate kinase; Provisional; Region: cmk; PRK00023 572544004250 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 572544004251 CMP-binding site; other site 572544004252 The sites determining sugar specificity; other site 572544004253 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 572544004254 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544004255 S-adenosylmethionine binding site [chemical binding]; other site 572544004256 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 572544004257 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 572544004258 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572544004259 putative active site [active] 572544004260 metal binding site [ion binding]; metal-binding site 572544004261 homodimer binding site [polypeptide binding]; other site 572544004262 phosphodiesterase; Provisional; Region: PRK12704 572544004263 uncharacterized domain HDIG; Region: HDIG; TIGR00277 572544004264 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 572544004265 anti sigma factor interaction site; other site 572544004266 regulatory phosphorylation site [posttranslational modification]; other site 572544004267 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 572544004268 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544004269 ATP binding site [chemical binding]; other site 572544004270 Mg2+ binding site [ion binding]; other site 572544004271 G-X-G motif; other site 572544004272 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 572544004273 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 572544004274 GTPase CgtA; Reviewed; Region: obgE; PRK12297 572544004275 GTP1/OBG; Region: GTP1_OBG; pfam01018 572544004276 Obg GTPase; Region: Obg; cd01898 572544004277 G1 box; other site 572544004278 GTP/Mg2+ binding site [chemical binding]; other site 572544004279 Switch I region; other site 572544004280 G2 box; other site 572544004281 G3 box; other site 572544004282 Switch II region; other site 572544004283 G4 box; other site 572544004284 G5 box; other site 572544004285 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 572544004286 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 572544004287 Protein of unknown function (DUF464); Region: DUF464; pfam04327 572544004288 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 572544004289 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 572544004290 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 572544004291 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 572544004292 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544004293 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 572544004294 Walker A/P-loop; other site 572544004295 ATP binding site [chemical binding]; other site 572544004296 Q-loop/lid; other site 572544004297 ABC transporter signature motif; other site 572544004298 Walker B; other site 572544004299 D-loop; other site 572544004300 H-loop/switch region; other site 572544004301 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 572544004302 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544004303 dimer interface [polypeptide binding]; other site 572544004304 conserved gate region; other site 572544004305 putative PBP binding loops; other site 572544004306 ABC-ATPase subunit interface; other site 572544004307 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 572544004308 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 572544004309 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 572544004310 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 572544004311 active site 572544004312 catalytic residues [active] 572544004313 metal binding site [ion binding]; metal-binding site 572544004314 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 572544004315 dimer interface [polypeptide binding]; other site 572544004316 [2Fe-2S] cluster binding site [ion binding]; other site 572544004317 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 572544004318 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 572544004319 FeS/SAM binding site; other site 572544004320 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 572544004321 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 572544004322 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 572544004323 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 572544004324 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 572544004325 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 572544004326 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 572544004327 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 572544004328 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 572544004329 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 572544004330 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 572544004331 Nitrogen regulatory protein P-II; Region: P-II; smart00938 572544004332 Nitrogen regulatory protein P-II; Region: P-II; smart00938 572544004333 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 572544004334 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 572544004335 nitrogenase iron protein; Region: nifH; TIGR01287 572544004336 Nucleotide-binding sites [chemical binding]; other site 572544004337 Walker A motif; other site 572544004338 Switch I region of nucleotide binding site; other site 572544004339 Fe4S4 binding sites [ion binding]; other site 572544004340 Switch II region of nucleotide binding site; other site 572544004341 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 572544004342 Glycoprotease family; Region: Peptidase_M22; pfam00814 572544004343 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 572544004344 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 572544004345 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 572544004346 active site 572544004347 nucleotide binding site [chemical binding]; other site 572544004348 HIGH motif; other site 572544004349 KMSKS motif; other site 572544004350 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 572544004351 putative active site [active] 572544004352 putative CoA binding site [chemical binding]; other site 572544004353 nudix motif; other site 572544004354 metal binding site [ion binding]; metal-binding site 572544004355 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 572544004356 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 572544004357 homodimer interface [polypeptide binding]; other site 572544004358 active site pocket [active] 572544004359 4-alpha-glucanotransferase; Provisional; Region: PRK14508 572544004360 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572544004361 active site 572544004362 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 572544004363 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 572544004364 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 572544004365 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 572544004366 RNA/DNA hybrid binding site [nucleotide binding]; other site 572544004367 active site 572544004368 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 572544004369 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 572544004370 4Fe-4S binding domain; Region: Fer4; pfam00037 572544004371 4Fe-4S binding domain; Region: Fer4; pfam00037 572544004372 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572544004373 Uncharacterized conserved protein [Function unknown]; Region: COG1739 572544004374 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 572544004375 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 572544004376 Predicted membrane protein [Function unknown]; Region: COG2860 572544004377 UPF0126 domain; Region: UPF0126; pfam03458 572544004378 UPF0126 domain; Region: UPF0126; pfam03458 572544004379 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 572544004380 Peptidase family M50; Region: Peptidase_M50; pfam02163 572544004381 active site 572544004382 putative substrate binding region [chemical binding]; other site 572544004383 Competence protein; Region: Competence; pfam03772 572544004384 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 572544004385 HD domain; Region: HD; pfam01966 572544004386 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 572544004387 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 572544004388 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 572544004389 hypothetical protein; Provisional; Region: PRK13670 572544004390 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 572544004391 Type III pantothenate kinase; Region: Pan_kinase; cl17198 572544004392 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 572544004393 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 572544004394 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 572544004395 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 572544004396 23S rRNA interface [nucleotide binding]; other site 572544004397 L3 interface [polypeptide binding]; other site 572544004398 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 572544004399 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 572544004400 active site 572544004401 NTP binding site [chemical binding]; other site 572544004402 metal binding triad [ion binding]; metal-binding site 572544004403 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 572544004404 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 572544004405 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 572544004406 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 572544004407 substrate binding pocket [chemical binding]; other site 572544004408 chain length determination region; other site 572544004409 substrate-Mg2+ binding site; other site 572544004410 catalytic residues [active] 572544004411 aspartate-rich region 1; other site 572544004412 active site lid residues [active] 572544004413 aspartate-rich region 2; other site 572544004414 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 572544004415 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 572544004416 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544004417 S-adenosylmethionine binding site [chemical binding]; other site 572544004418 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 572544004419 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 572544004420 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 572544004421 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544004422 S-adenosylmethionine binding site [chemical binding]; other site 572544004423 peptide chain release factor 1; Validated; Region: prfA; PRK00591 572544004424 This domain is found in peptide chain release factors; Region: PCRF; smart00937 572544004425 RF-1 domain; Region: RF-1; pfam00472 572544004426 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 572544004427 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572544004428 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 572544004429 DNA binding residues [nucleotide binding] 572544004430 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 572544004431 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 572544004432 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 572544004433 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 572544004434 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 572544004435 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 572544004436 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 572544004437 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572544004438 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572544004439 Peptidase family M23; Region: Peptidase_M23; pfam01551 572544004440 transcription termination factor Rho; Provisional; Region: rho; PRK09376 572544004441 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 572544004442 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 572544004443 RNA binding site [nucleotide binding]; other site 572544004444 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 572544004445 Walker A motif; other site 572544004446 ATP binding site [chemical binding]; other site 572544004447 Walker B motif; other site 572544004448 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 572544004449 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 572544004450 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 572544004451 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 572544004452 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 572544004453 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 572544004454 FeS/SAM binding site; other site 572544004455 TRAM domain; Region: TRAM; pfam01938 572544004456 N-glycosylase/DNA lyase; Provisional; Region: PRK01229 572544004457 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 572544004458 minor groove reading motif; other site 572544004459 helix-hairpin-helix signature motif; other site 572544004460 substrate binding pocket [chemical binding]; other site 572544004461 active site 572544004462 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572544004463 hypothetical protein; Provisional; Region: PRK10621 572544004464 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 572544004465 active site 572544004466 catalytic motif [active] 572544004467 Zn binding site [ion binding]; other site 572544004468 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 572544004469 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 572544004470 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 572544004471 phosphopentomutase; Provisional; Region: PRK05362 572544004472 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 572544004473 intersubunit interface [polypeptide binding]; other site 572544004474 active site 572544004475 catalytic residue [active] 572544004476 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 572544004477 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 572544004478 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 572544004479 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 572544004480 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 572544004481 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544004482 ligand binding site [chemical binding]; other site 572544004483 flexible hinge region; other site 572544004484 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 572544004485 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 572544004486 substrate-cofactor binding pocket; other site 572544004487 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544004488 catalytic residue [active] 572544004489 transcription antitermination factor NusB; Region: nusB; TIGR01951 572544004490 Asp23 family; Region: Asp23; pfam03780 572544004491 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 572544004492 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572544004493 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 572544004494 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 572544004495 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 572544004496 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 572544004497 carboxyltransferase (CT) interaction site; other site 572544004498 biotinylation site [posttranslational modification]; other site 572544004499 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 572544004500 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 572544004501 active site 572544004502 PHP Thumb interface [polypeptide binding]; other site 572544004503 metal binding site [ion binding]; metal-binding site 572544004504 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 572544004505 generic binding surface I; other site 572544004506 generic binding surface II; other site 572544004507 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 572544004508 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 572544004509 ATP binding site [chemical binding]; other site 572544004510 putative Mg++ binding site [ion binding]; other site 572544004511 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 572544004512 nucleotide binding region [chemical binding]; other site 572544004513 ATP-binding site [chemical binding]; other site 572544004514 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 572544004515 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572544004516 active site 572544004517 motif I; other site 572544004518 motif II; other site 572544004519 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 572544004520 GTPase Era; Reviewed; Region: era; PRK00089 572544004521 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 572544004522 G1 box; other site 572544004523 GTP/Mg2+ binding site [chemical binding]; other site 572544004524 Switch I region; other site 572544004525 G2 box; other site 572544004526 Switch II region; other site 572544004527 G3 box; other site 572544004528 G4 box; other site 572544004529 G5 box; other site 572544004530 KH domain; Region: KH_2; pfam07650 572544004531 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 572544004532 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 572544004533 active site 572544004534 DNA binding site [nucleotide binding] 572544004535 Int/Topo IB signature motif; other site 572544004536 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 572544004537 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544004538 Walker A/P-loop; other site 572544004539 ATP binding site [chemical binding]; other site 572544004540 Q-loop/lid; other site 572544004541 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 572544004542 ABC transporter signature motif; other site 572544004543 Walker B; other site 572544004544 D-loop; other site 572544004545 H-loop/switch region; other site 572544004546 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 572544004547 ATP-NAD kinase; Region: NAD_kinase; pfam01513 572544004548 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 572544004549 Peptidase family M23; Region: Peptidase_M23; pfam01551 572544004550 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 572544004551 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 572544004552 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544004553 Walker A/P-loop; other site 572544004554 ATP binding site [chemical binding]; other site 572544004555 Q-loop/lid; other site 572544004556 ABC transporter signature motif; other site 572544004557 Walker B; other site 572544004558 D-loop; other site 572544004559 H-loop/switch region; other site 572544004560 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 572544004561 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 572544004562 PYR/PP interface [polypeptide binding]; other site 572544004563 dimer interface [polypeptide binding]; other site 572544004564 TPP binding site [chemical binding]; other site 572544004565 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572544004566 transketolase; Reviewed; Region: PRK05899 572544004567 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 572544004568 TPP-binding site [chemical binding]; other site 572544004569 dimer interface [polypeptide binding]; other site 572544004570 elongation factor Tu; Reviewed; Region: PRK00049 572544004571 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 572544004572 G1 box; other site 572544004573 GEF interaction site [polypeptide binding]; other site 572544004574 GTP/Mg2+ binding site [chemical binding]; other site 572544004575 Switch I region; other site 572544004576 G2 box; other site 572544004577 G3 box; other site 572544004578 Switch II region; other site 572544004579 G4 box; other site 572544004580 G5 box; other site 572544004581 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 572544004582 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 572544004583 Antibiotic Binding Site [chemical binding]; other site 572544004584 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 572544004585 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 572544004586 FeS/SAM binding site; other site 572544004587 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 572544004588 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 572544004589 phosphate binding site [ion binding]; other site 572544004590 putative substrate binding pocket [chemical binding]; other site 572544004591 dimer interface [polypeptide binding]; other site 572544004592 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 572544004593 Omptin family; Region: Omptin; cl01886 572544004594 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 572544004595 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 572544004596 dimerization interface [polypeptide binding]; other site 572544004597 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 572544004598 dimer interface [polypeptide binding]; other site 572544004599 phosphorylation site [posttranslational modification] 572544004600 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544004601 ATP binding site [chemical binding]; other site 572544004602 Mg2+ binding site [ion binding]; other site 572544004603 G-X-G motif; other site 572544004604 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544004605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544004606 active site 572544004607 phosphorylation site [posttranslational modification] 572544004608 intermolecular recognition site; other site 572544004609 dimerization interface [polypeptide binding]; other site 572544004610 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 572544004611 DNA binding site [nucleotide binding] 572544004612 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 572544004613 putative homodimer interface [polypeptide binding]; other site 572544004614 putative homotetramer interface [polypeptide binding]; other site 572544004615 allosteric switch controlling residues; other site 572544004616 putative metal binding site [ion binding]; other site 572544004617 putative homodimer-homodimer interface [polypeptide binding]; other site 572544004618 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 572544004619 metal-binding site [ion binding] 572544004620 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 572544004621 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 572544004622 metal-binding site [ion binding] 572544004623 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 572544004624 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 572544004625 metal-binding site [ion binding] 572544004626 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 572544004627 Soluble P-type ATPase [General function prediction only]; Region: COG4087 572544004628 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 572544004629 HflC protein; Region: hflC; TIGR01932 572544004630 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 572544004631 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 572544004632 HflK protein; Region: hflK; TIGR01933 572544004633 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 572544004634 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 572544004635 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 572544004636 DNA repair protein RadA; Provisional; Region: PRK11823 572544004637 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 572544004638 Walker A motif/ATP binding site; other site 572544004639 ATP binding site [chemical binding]; other site 572544004640 Walker B motif; other site 572544004641 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 572544004642 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 572544004643 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 572544004644 active site 572544004645 (T/H)XGH motif; other site 572544004646 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 572544004647 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 572544004648 homodimer interface [polypeptide binding]; other site 572544004649 oligonucleotide binding site [chemical binding]; other site 572544004650 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 572544004651 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 572544004652 FeS/SAM binding site; other site 572544004653 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 572544004654 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 572544004655 dimerization interface [polypeptide binding]; other site 572544004656 active site 572544004657 metal binding site [ion binding]; metal-binding site 572544004658 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 572544004659 dsRNA binding site [nucleotide binding]; other site 572544004660 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 572544004661 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 572544004662 dimer interface [polypeptide binding]; other site 572544004663 active site 572544004664 acyl carrier protein; Provisional; Region: acpP; PRK00982 572544004665 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 572544004666 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 572544004667 NAD(P) binding site [chemical binding]; other site 572544004668 homotetramer interface [polypeptide binding]; other site 572544004669 homodimer interface [polypeptide binding]; other site 572544004670 active site 572544004671 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 572544004672 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 572544004673 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 572544004674 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 572544004675 dimer interface [polypeptide binding]; other site 572544004676 active site 572544004677 CoA binding pocket [chemical binding]; other site 572544004678 putative phosphate acyltransferase; Provisional; Region: PRK05331 572544004679 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 572544004680 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 572544004681 GTP-binding protein YchF; Reviewed; Region: PRK09601 572544004682 YchF GTPase; Region: YchF; cd01900 572544004683 G1 box; other site 572544004684 GTP/Mg2+ binding site [chemical binding]; other site 572544004685 Switch I region; other site 572544004686 G2 box; other site 572544004687 Switch II region; other site 572544004688 G3 box; other site 572544004689 G4 box; other site 572544004690 G5 box; other site 572544004691 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 572544004692 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 572544004693 phosphoglyceromutase; Provisional; Region: PRK05434 572544004694 triosephosphate isomerase; Provisional; Region: PRK14567 572544004695 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 572544004696 substrate binding site [chemical binding]; other site 572544004697 dimer interface [polypeptide binding]; other site 572544004698 catalytic triad [active] 572544004699 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 572544004700 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572544004701 active site 572544004702 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 572544004703 hypothetical protein; Reviewed; Region: PRK12497 572544004704 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 572544004705 RNA/DNA hybrid binding site [nucleotide binding]; other site 572544004706 active site 572544004707 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 572544004708 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 572544004709 RNA binding surface [nucleotide binding]; other site 572544004710 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 572544004711 active site 572544004712 serine/threonine protein kinase; Provisional; Region: PRK12274 572544004713 Rubredoxin [Energy production and conversion]; Region: COG1773 572544004714 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cd00350 572544004715 iron binding site [ion binding]; other site 572544004716 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 572544004717 Rubrerythrin [Energy production and conversion]; Region: COG1592 572544004718 diiron binding motif [ion binding]; other site 572544004719 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 572544004720 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 572544004721 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 572544004722 active site 572544004723 phosphorylation site [posttranslational modification] 572544004724 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 572544004725 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 572544004726 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 572544004727 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 572544004728 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 572544004729 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 572544004730 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 572544004731 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 572544004732 ligand binding site [chemical binding]; other site 572544004733 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 572544004734 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 572544004735 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572544004736 active site 572544004737 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 572544004738 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 572544004739 Substrate binding site; other site 572544004740 Mg++ binding site; other site 572544004741 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 572544004742 active site 572544004743 substrate binding site [chemical binding]; other site 572544004744 CoA binding site [chemical binding]; other site 572544004745 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 572544004746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572544004747 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 572544004748 putative dimerization interface [polypeptide binding]; other site 572544004749 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 572544004750 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 572544004751 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 572544004752 HSP70 interaction site [polypeptide binding]; other site 572544004753 TPR repeat; Region: TPR_11; pfam13414 572544004754 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 572544004755 TPR motif; other site 572544004756 binding surface 572544004757 TPR repeat; Region: TPR_11; pfam13414 572544004758 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 572544004759 23S rRNA binding site [nucleotide binding]; other site 572544004760 L21 binding site [polypeptide binding]; other site 572544004761 L13 binding site [polypeptide binding]; other site 572544004762 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 572544004763 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 572544004764 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 572544004765 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 572544004766 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 572544004767 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 572544004768 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 572544004769 putative active site [active] 572544004770 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 572544004771 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 572544004772 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 572544004773 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 572544004774 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 572544004775 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572544004776 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572544004777 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 572544004778 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 572544004779 nucleotide binding site [chemical binding]; other site 572544004780 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 572544004781 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 572544004782 active site 572544004783 Zn binding site [ion binding]; other site 572544004784 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 572544004785 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 572544004786 active site 572544004787 HIGH motif; other site 572544004788 dimer interface [polypeptide binding]; other site 572544004789 KMSKS motif; other site 572544004790 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 572544004791 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 572544004792 B12 binding site [chemical binding]; other site 572544004793 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 572544004794 active site 572544004795 thymidine kinase; Provisional; Region: PRK04296 572544004796 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 572544004797 AAA domain; Region: AAA_26; pfam13500 572544004798 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 572544004799 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 572544004800 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544004801 DNA-binding site [nucleotide binding]; DNA binding site 572544004802 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 572544004803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544004804 homodimer interface [polypeptide binding]; other site 572544004805 catalytic residue [active] 572544004806 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 572544004807 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572544004808 Walker A/P-loop; other site 572544004809 ATP binding site [chemical binding]; other site 572544004810 Q-loop/lid; other site 572544004811 ABC transporter signature motif; other site 572544004812 Walker B; other site 572544004813 D-loop; other site 572544004814 H-loop/switch region; other site 572544004815 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 572544004816 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 572544004817 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572544004818 Walker A/P-loop; other site 572544004819 ATP binding site [chemical binding]; other site 572544004820 Q-loop/lid; other site 572544004821 ABC transporter signature motif; other site 572544004822 Walker B; other site 572544004823 D-loop; other site 572544004824 H-loop/switch region; other site 572544004825 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 572544004826 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 572544004827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544004828 dimer interface [polypeptide binding]; other site 572544004829 conserved gate region; other site 572544004830 putative PBP binding loops; other site 572544004831 ABC-ATPase subunit interface; other site 572544004832 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572544004833 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544004834 dimer interface [polypeptide binding]; other site 572544004835 conserved gate region; other site 572544004836 putative PBP binding loops; other site 572544004837 ABC-ATPase subunit interface; other site 572544004838 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 572544004839 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 572544004840 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 572544004841 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 572544004842 catalytic triad [active] 572544004843 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 572544004844 intracellular protease, PfpI family; Region: PfpI; TIGR01382 572544004845 proposed catalytic triad [active] 572544004846 conserved cys residue [active] 572544004847 Catalytic GIY-YIG domain of coliphage T4 non-specific endonuclease II, type II restriction endonuclease R.Hpy188I, and similar proteins; Region: GIY-YIG_EndoII_Hpy188I_like; cd10436 572544004848 GIY-YIG motif/motif A; other site 572544004849 DNA binding site [nucleotide binding] 572544004850 active site 572544004851 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572544004852 zinc transporter ZupT; Provisional; Region: PRK04201 572544004853 ZIP Zinc transporter; Region: Zip; pfam02535 572544004854 Rubrerythrin [Energy production and conversion]; Region: COG1592 572544004855 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 572544004856 binuclear metal center [ion binding]; other site 572544004857 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 572544004858 iron binding site [ion binding]; other site 572544004859 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 572544004860 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 572544004861 ATP binding site [chemical binding]; other site 572544004862 putative Mg++ binding site [ion binding]; other site 572544004863 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 572544004864 nucleotide binding region [chemical binding]; other site 572544004865 ATP-binding site [chemical binding]; other site 572544004866 RQC domain; Region: RQC; pfam09382 572544004867 HRDC domain; Region: HRDC; pfam00570 572544004868 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 572544004869 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572544004870 substrate binding pocket [chemical binding]; other site 572544004871 membrane-bound complex binding site; other site 572544004872 hinge residues; other site 572544004873 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 572544004874 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 572544004875 PhnA protein; Region: PhnA; pfam03831 572544004876 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 572544004877 SnoaL-like domain; Region: SnoaL_2; pfam12680 572544004878 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 572544004879 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 572544004880 Predicted membrane protein [Function unknown]; Region: COG2364 572544004881 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572544004882 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572544004883 DNA binding site [nucleotide binding] 572544004884 domain linker motif; other site 572544004885 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 572544004886 putative dimerization interface [polypeptide binding]; other site 572544004887 putative ligand binding site [chemical binding]; other site 572544004888 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 572544004889 Na binding site [ion binding]; other site 572544004890 FMN-binding domain; Region: FMN_bind; pfam04205 572544004891 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 572544004892 L-aspartate oxidase; Provisional; Region: PRK06175 572544004893 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 572544004894 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 572544004895 TrkA-C domain; Region: TrkA_C; pfam02080 572544004896 Predicted permease; Region: DUF318; cl17795 572544004897 L-aspartate oxidase; Provisional; Region: PRK06175 572544004898 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 572544004899 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 572544004900 Citrate transporter; Region: CitMHS; pfam03600 572544004901 Cache domain; Region: Cache_1; pfam02743 572544004902 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544004903 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 572544004904 dimer interface [polypeptide binding]; other site 572544004905 phosphorylation site [posttranslational modification] 572544004906 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544004907 ATP binding site [chemical binding]; other site 572544004908 Mg2+ binding site [ion binding]; other site 572544004909 G-X-G motif; other site 572544004910 Response regulator receiver domain; Region: Response_reg; pfam00072 572544004911 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544004912 active site 572544004913 phosphorylation site [posttranslational modification] 572544004914 intermolecular recognition site; other site 572544004915 dimerization interface [polypeptide binding]; other site 572544004916 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544004917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544004918 active site 572544004919 phosphorylation site [posttranslational modification] 572544004920 intermolecular recognition site; other site 572544004921 dimerization interface [polypeptide binding]; other site 572544004922 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 572544004923 DNA binding site [nucleotide binding] 572544004924 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 572544004925 DNA binding residues [nucleotide binding] 572544004926 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 572544004927 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 572544004928 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 572544004929 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 572544004930 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 572544004931 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 572544004932 P loop nucleotide binding; other site 572544004933 switch II; other site 572544004934 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 572544004935 P loop nucleotide binding; other site 572544004936 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 572544004937 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 572544004938 switch II; other site 572544004939 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 572544004940 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 572544004941 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 572544004942 homodimer interface [polypeptide binding]; other site 572544004943 Walker A motif; other site 572544004944 ATP binding site [chemical binding]; other site 572544004945 hydroxycobalamin binding site [chemical binding]; other site 572544004946 Walker B motif; other site 572544004947 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 572544004948 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572544004949 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544004950 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572544004951 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 572544004952 active site residue [active] 572544004953 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 572544004954 active site 572544004955 catalytic triad [active] 572544004956 oxyanion hole [active] 572544004957 serine/threonine transporter SstT; Provisional; Region: PRK13628 572544004958 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 572544004959 Protein of unknown function (DUF554); Region: DUF554; pfam04474 572544004960 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 572544004961 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572544004962 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544004963 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12364 572544004964 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 572544004965 dimer interface [polypeptide binding]; other site 572544004966 FMN binding site [chemical binding]; other site 572544004967 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544004968 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 572544004969 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 572544004970 Uncharacterized conserved protein [Function unknown]; Region: COG1359 572544004971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544004972 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572544004973 metal binding site [ion binding]; metal-binding site 572544004974 active site 572544004975 I-site; other site 572544004976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544004977 Zn2+ binding site [ion binding]; other site 572544004978 Mg2+ binding site [ion binding]; other site 572544004979 Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like; cd12825 572544004980 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 572544004981 Cl binding site [ion binding]; other site 572544004982 oligomer interface [polypeptide binding]; other site 572544004983 Predicted membrane protein [Function unknown]; Region: COG2364 572544004984 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 572544004985 Lysine efflux permease [General function prediction only]; Region: COG1279 572544004986 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 572544004987 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 572544004988 DNA binding residues [nucleotide binding] 572544004989 drug binding residues [chemical binding]; other site 572544004990 dimer interface [polypeptide binding]; other site 572544004991 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 572544004992 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 572544004993 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 572544004994 putative NAD(P) binding site [chemical binding]; other site 572544004995 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572544004996 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 572544004997 CHAD domain; Region: CHAD; pfam05235 572544004998 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544004999 Zn2+ binding site [ion binding]; other site 572544005000 Mg2+ binding site [ion binding]; other site 572544005001 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 572544005002 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544005003 Zn2+ binding site [ion binding]; other site 572544005004 Mg2+ binding site [ion binding]; other site 572544005005 polyphosphate kinase; Provisional; Region: PRK05443 572544005006 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 572544005007 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 572544005008 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 572544005009 putative domain interface [polypeptide binding]; other site 572544005010 putative active site [active] 572544005011 catalytic site [active] 572544005012 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 572544005013 putative domain interface [polypeptide binding]; other site 572544005014 putative active site [active] 572544005015 catalytic site [active] 572544005016 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 572544005017 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 572544005018 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 572544005019 Walker A/P-loop; other site 572544005020 ATP binding site [chemical binding]; other site 572544005021 Q-loop/lid; other site 572544005022 ABC transporter signature motif; other site 572544005023 Walker B; other site 572544005024 D-loop; other site 572544005025 H-loop/switch region; other site 572544005026 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 572544005027 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 572544005028 Walker A/P-loop; other site 572544005029 ATP binding site [chemical binding]; other site 572544005030 Q-loop/lid; other site 572544005031 ABC transporter signature motif; other site 572544005032 Walker B; other site 572544005033 D-loop; other site 572544005034 H-loop/switch region; other site 572544005035 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 572544005036 YKOF-related Family; Region: Ykof; pfam07615 572544005037 YKOF-related Family; Region: Ykof; pfam07615 572544005038 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 572544005039 putative FMN binding site [chemical binding]; other site 572544005040 Amidohydrolase; Region: Amidohydro_2; pfam04909 572544005041 Transcriptional regulators [Transcription]; Region: MarR; COG1846 572544005042 MarR family; Region: MarR_2; pfam12802 572544005043 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 572544005044 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 572544005045 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 572544005046 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 572544005047 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 572544005048 homodimer interface [polypeptide binding]; other site 572544005049 substrate-cofactor binding pocket; other site 572544005050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544005051 catalytic residue [active] 572544005052 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 572544005053 putative active site [active] 572544005054 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 572544005055 Transposase; Region: HTH_Tnp_1; pfam01527 572544005056 Fic family protein [Function unknown]; Region: COG3177 572544005057 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 572544005058 Fic/DOC family; Region: Fic; pfam02661 572544005059 Malonate transporter MadL subunit; Region: MadL; cl04273 572544005060 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 572544005061 Predicted transcriptional regulators [Transcription]; Region: COG1695 572544005062 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 572544005063 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 572544005064 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 572544005065 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 572544005066 putative substrate translocation pore; other site 572544005067 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 572544005068 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 572544005069 active site 572544005070 FMN binding site [chemical binding]; other site 572544005071 substrate binding site [chemical binding]; other site 572544005072 putative catalytic residue [active] 572544005073 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572544005074 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544005075 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572544005076 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572544005077 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 572544005078 Predicted permeases [General function prediction only]; Region: COG0679 572544005079 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572544005080 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 572544005081 Coenzyme A binding pocket [chemical binding]; other site 572544005082 Uncharacterized conserved protein [Function unknown]; Region: COG2361 572544005083 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572544005084 active site 572544005085 NTP binding site [chemical binding]; other site 572544005086 metal binding triad [ion binding]; metal-binding site 572544005087 antibiotic binding site [chemical binding]; other site 572544005088 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 572544005089 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; cd00338 572544005090 catalytic residues [active] 572544005091 catalytic nucleophile [active] 572544005092 Recombinase; Region: Recombinase; pfam07508 572544005093 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 572544005094 DEAD-like helicases superfamily; Region: DEXDc; smart00487 572544005095 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 572544005096 ATP binding site [chemical binding]; other site 572544005097 putative Mg++ binding site [ion binding]; other site 572544005098 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 572544005099 nucleotide binding region [chemical binding]; other site 572544005100 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 572544005101 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 572544005102 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 572544005103 BCCT family transporter; Region: BCCT; pfam02028 572544005104 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 572544005105 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 572544005106 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 572544005107 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 572544005108 SmpB-tmRNA interface; other site 572544005109 ribonuclease R; Region: RNase_R; TIGR02063 572544005110 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 572544005111 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 572544005112 RNB domain; Region: RNB; pfam00773 572544005113 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544005114 Zn2+ binding site [ion binding]; other site 572544005115 Mg2+ binding site [ion binding]; other site 572544005116 Sporulation and spore germination; Region: Germane; smart00909 572544005117 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 572544005118 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 572544005119 active site 572544005120 metal binding site [ion binding]; metal-binding site 572544005121 Preprotein translocase subunit; Region: YajC; pfam02699 572544005122 chaperone protein DnaJ; Provisional; Region: PRK10767 572544005123 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 572544005124 HSP70 interaction site [polypeptide binding]; other site 572544005125 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 572544005126 substrate binding site [polypeptide binding]; other site 572544005127 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 572544005128 Zn binding sites [ion binding]; other site 572544005129 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 572544005130 dimer interface [polypeptide binding]; other site 572544005131 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 572544005132 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 572544005133 DNA binding site [nucleotide binding] 572544005134 active site 572544005135 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 572544005136 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 572544005137 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 572544005138 nucleotide binding site [chemical binding]; other site 572544005139 NEF interaction site [polypeptide binding]; other site 572544005140 SBD interface [polypeptide binding]; other site 572544005141 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 572544005142 GrpE; Region: GrpE; pfam01025 572544005143 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 572544005144 dimer interface [polypeptide binding]; other site 572544005145 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 572544005146 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 572544005147 GAF domain; Region: GAF_3; pfam13492 572544005148 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544005149 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544005150 metal binding site [ion binding]; metal-binding site 572544005151 active site 572544005152 I-site; other site 572544005153 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 572544005154 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 572544005155 NAD binding site [chemical binding]; other site 572544005156 homodimer interface [polypeptide binding]; other site 572544005157 active site 572544005158 substrate binding site [chemical binding]; other site 572544005159 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544005160 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544005161 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 572544005162 putative efflux protein, MATE family; Region: matE; TIGR00797 572544005163 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 572544005164 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 572544005165 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 572544005166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544005167 homodimer interface [polypeptide binding]; other site 572544005168 catalytic residue [active] 572544005169 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 572544005170 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 572544005171 putative ligand binding site [chemical binding]; other site 572544005172 putative NAD binding site [chemical binding]; other site 572544005173 catalytic site [active] 572544005174 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 572544005175 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 572544005176 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 572544005177 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 572544005178 active site 572544005179 dimer interface [polypeptide binding]; other site 572544005180 motif 1; other site 572544005181 motif 2; other site 572544005182 motif 3; other site 572544005183 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 572544005184 anticodon binding site; other site 572544005185 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 572544005186 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 572544005187 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 572544005188 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 572544005189 homodimer interface [polypeptide binding]; other site 572544005190 substrate-cofactor binding pocket; other site 572544005191 catalytic residue [active] 572544005192 glutamate dehydrogenase; Provisional; Region: PRK09414 572544005193 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 572544005194 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 572544005195 NAD(P) binding site [chemical binding]; other site 572544005196 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 572544005197 catalytic residues [active] 572544005198 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 572544005199 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 572544005200 catalytic residues [active] 572544005201 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 572544005202 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 572544005203 putative ATP binding site [chemical binding]; other site 572544005204 putative substrate interface [chemical binding]; other site 572544005205 flavodoxin FldA; Validated; Region: PRK09267 572544005206 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 572544005207 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 572544005208 generic binding surface II; other site 572544005209 ssDNA binding site; other site 572544005210 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 572544005211 ATP binding site [chemical binding]; other site 572544005212 putative Mg++ binding site [ion binding]; other site 572544005213 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 572544005214 nucleotide binding region [chemical binding]; other site 572544005215 ATP-binding site [chemical binding]; other site 572544005216 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 572544005217 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 572544005218 Walker A motif; other site 572544005219 ATP binding site [chemical binding]; other site 572544005220 Walker B motif; other site 572544005221 prolyl-tRNA synthetase; Provisional; Region: PRK09194 572544005222 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 572544005223 dimer interface [polypeptide binding]; other site 572544005224 motif 1; other site 572544005225 active site 572544005226 motif 2; other site 572544005227 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 572544005228 putative deacylase active site [active] 572544005229 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 572544005230 active site 572544005231 motif 3; other site 572544005232 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 572544005233 anticodon binding site; other site 572544005234 hypothetical protein; Validated; Region: PRK00110 572544005235 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_2; cd10034 572544005236 putative uracil binding site [chemical binding]; other site 572544005237 putative active site [active] 572544005238 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 572544005239 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 572544005240 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 572544005241 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 572544005242 non-specific DNA binding site [nucleotide binding]; other site 572544005243 salt bridge; other site 572544005244 sequence-specific DNA binding site [nucleotide binding]; other site 572544005245 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 572544005246 Catalytic site [active] 572544005247 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572544005248 EamA-like transporter family; Region: EamA; pfam00892 572544005249 HflK protein; Region: hflK; TIGR01933 572544005250 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 572544005251 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 572544005252 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 572544005253 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 572544005254 dihydropteroate synthase; Region: DHPS; TIGR01496 572544005255 substrate binding pocket [chemical binding]; other site 572544005256 dimer interface [polypeptide binding]; other site 572544005257 inhibitor binding site; inhibition site 572544005258 NAD synthetase; Provisional; Region: PRK13980 572544005259 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 572544005260 homodimer interface [polypeptide binding]; other site 572544005261 NAD binding pocket [chemical binding]; other site 572544005262 ATP binding pocket [chemical binding]; other site 572544005263 Mg binding site [ion binding]; other site 572544005264 active-site loop [active] 572544005265 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 572544005266 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 572544005267 GTP/Mg2+ binding site [chemical binding]; other site 572544005268 G4 box; other site 572544005269 G5 box; other site 572544005270 G1 box; other site 572544005271 Switch I region; other site 572544005272 G2 box; other site 572544005273 G3 box; other site 572544005274 Switch II region; other site 572544005275 Predicted methyltransferases [General function prediction only]; Region: COG0313 572544005276 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 572544005277 putative SAM binding site [chemical binding]; other site 572544005278 putative homodimer interface [polypeptide binding]; other site 572544005279 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 572544005280 C-terminal peptidase (prc); Region: prc; TIGR00225 572544005281 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 572544005282 protein binding site [polypeptide binding]; other site 572544005283 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 572544005284 Catalytic dyad [active] 572544005285 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 572544005286 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 572544005287 RNA binding surface [nucleotide binding]; other site 572544005288 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 572544005289 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 572544005290 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 572544005291 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 572544005292 TPP-binding site; other site 572544005293 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 572544005294 PYR/PP interface [polypeptide binding]; other site 572544005295 dimer interface [polypeptide binding]; other site 572544005296 TPP binding site [chemical binding]; other site 572544005297 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572544005298 Divergent PAP2 family; Region: DUF212; pfam02681 572544005299 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 572544005300 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 572544005301 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 572544005302 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 572544005303 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 572544005304 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 572544005305 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 572544005306 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 572544005307 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 572544005308 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 572544005309 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 572544005310 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 572544005311 FeS/SAM binding site; other site 572544005312 TRAM domain; Region: TRAM; cl01282 572544005313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 572544005314 Rrf2 family protein; Region: rrf2_super; TIGR00738 572544005315 Transcriptional regulator; Region: Rrf2; pfam02082 572544005316 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 572544005317 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 572544005318 Walker A motif; other site 572544005319 ATP binding site [chemical binding]; other site 572544005320 Walker B motif; other site 572544005321 arginine finger; other site 572544005322 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 572544005323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 572544005324 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 572544005325 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 572544005326 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 572544005327 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 572544005328 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544005329 dimer interface [polypeptide binding]; other site 572544005330 conserved gate region; other site 572544005331 ABC-ATPase subunit interface; other site 572544005332 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 572544005333 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 572544005334 Walker A/P-loop; other site 572544005335 ATP binding site [chemical binding]; other site 572544005336 Q-loop/lid; other site 572544005337 ABC transporter signature motif; other site 572544005338 Walker B; other site 572544005339 D-loop; other site 572544005340 H-loop/switch region; other site 572544005341 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 572544005342 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 572544005343 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 572544005344 RNA binding site [nucleotide binding]; other site 572544005345 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 572544005346 RNA binding site [nucleotide binding]; other site 572544005347 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 572544005348 RNA binding site [nucleotide binding]; other site 572544005349 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; cd00164 572544005350 RNA binding site [nucleotide binding]; other site 572544005351 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; cd00164 572544005352 RNA binding site [nucleotide binding]; other site 572544005353 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 572544005354 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 572544005355 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 572544005356 dimerization domain swap beta strand [polypeptide binding]; other site 572544005357 regulatory protein interface [polypeptide binding]; other site 572544005358 active site 572544005359 regulatory phosphorylation site [posttranslational modification]; other site 572544005360 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 572544005361 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 572544005362 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 572544005363 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 572544005364 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 572544005365 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 572544005366 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544005367 Predicted dehydrogenase [General function prediction only]; Region: COG0579 572544005368 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572544005369 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572544005370 glycerol kinase; Provisional; Region: glpK; PRK00047 572544005371 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 572544005372 N- and C-terminal domain interface [polypeptide binding]; other site 572544005373 active site 572544005374 MgATP binding site [chemical binding]; other site 572544005375 catalytic site [active] 572544005376 metal binding site [ion binding]; metal-binding site 572544005377 glycerol binding site [chemical binding]; other site 572544005378 homotetramer interface [polypeptide binding]; other site 572544005379 homodimer interface [polypeptide binding]; other site 572544005380 FBP binding site [chemical binding]; other site 572544005381 protein IIAGlc interface [polypeptide binding]; other site 572544005382 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 572544005383 amphipathic channel; other site 572544005384 Asn-Pro-Ala signature motifs; other site 572544005385 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 572544005386 Uncharacterized protein with conserved CXXC pairs [Function unknown]; Region: COG3862 572544005387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 572544005388 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544005389 Predicted dehydrogenase [General function prediction only]; Region: COG0579 572544005390 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572544005391 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572544005392 glycerol kinase; Provisional; Region: glpK; PRK00047 572544005393 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 572544005394 N- and C-terminal domain interface [polypeptide binding]; other site 572544005395 active site 572544005396 MgATP binding site [chemical binding]; other site 572544005397 catalytic site [active] 572544005398 metal binding site [ion binding]; metal-binding site 572544005399 glycerol binding site [chemical binding]; other site 572544005400 homotetramer interface [polypeptide binding]; other site 572544005401 homodimer interface [polypeptide binding]; other site 572544005402 FBP binding site [chemical binding]; other site 572544005403 protein IIAGlc interface [polypeptide binding]; other site 572544005404 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 572544005405 amphipathic channel; other site 572544005406 Asn-Pro-Ala signature motifs; other site 572544005407 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 572544005408 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional; Region: PRK12778 572544005409 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 572544005410 FAD binding pocket [chemical binding]; other site 572544005411 FAD binding motif [chemical binding]; other site 572544005412 phosphate binding motif [ion binding]; other site 572544005413 beta-alpha-beta structure motif; other site 572544005414 NAD binding pocket [chemical binding]; other site 572544005415 Iron coordination center [ion binding]; other site 572544005416 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544005417 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 572544005418 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 572544005419 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 572544005420 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 572544005421 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 572544005422 trimerization site [polypeptide binding]; other site 572544005423 active site 572544005424 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 572544005425 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 572544005426 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572544005427 catalytic residue [active] 572544005428 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 572544005429 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 572544005430 minor groove reading motif; other site 572544005431 helix-hairpin-helix signature motif; other site 572544005432 substrate binding pocket [chemical binding]; other site 572544005433 active site 572544005434 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 572544005435 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 572544005436 metal binding triad [ion binding]; metal-binding site 572544005437 aspartate aminotransferase; Provisional; Region: PRK07568 572544005438 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 572544005439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544005440 homodimer interface [polypeptide binding]; other site 572544005441 catalytic residue [active] 572544005442 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 572544005443 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 572544005444 active site 572544005445 HIGH motif; other site 572544005446 dimer interface [polypeptide binding]; other site 572544005447 KMSKS motif; other site 572544005448 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 572544005449 RNA binding surface [nucleotide binding]; other site 572544005450 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 572544005451 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 572544005452 pyruvate kinase; Provisional; Region: PRK09206 572544005453 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 572544005454 domain interfaces; other site 572544005455 active site 572544005456 enolase; Provisional; Region: eno; PRK00077 572544005457 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 572544005458 dimer interface [polypeptide binding]; other site 572544005459 metal binding site [ion binding]; metal-binding site 572544005460 substrate binding pocket [chemical binding]; other site 572544005461 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 572544005462 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 572544005463 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 572544005464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 572544005465 active site 572544005466 phosphorylation site [posttranslational modification] 572544005467 intermolecular recognition site; other site 572544005468 dimerization interface [polypeptide binding]; other site 572544005469 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 572544005470 Walker A motif; other site 572544005471 ATP binding site [chemical binding]; other site 572544005472 Walker B motif; other site 572544005473 arginine finger; other site 572544005474 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 572544005475 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572544005476 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544005477 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544005478 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 572544005479 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 572544005480 inhibitor-cofactor binding pocket; inhibition site 572544005481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544005482 catalytic residue [active] 572544005483 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 572544005484 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 572544005485 active site 572544005486 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 572544005487 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 572544005488 putative substrate binding region [chemical binding]; other site 572544005489 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 572544005490 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 572544005491 TMP-binding site; other site 572544005492 ATP-binding site [chemical binding]; other site 572544005493 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 572544005494 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 572544005495 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 572544005496 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 572544005497 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 572544005498 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 572544005499 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 572544005500 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 572544005501 catalytic residue [active] 572544005502 putative FPP diphosphate binding site; other site 572544005503 putative FPP binding hydrophobic cleft; other site 572544005504 dimer interface [polypeptide binding]; other site 572544005505 putative IPP diphosphate binding site; other site 572544005506 ribosome recycling factor; Reviewed; Region: frr; PRK00083 572544005507 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 572544005508 hinge region; other site 572544005509 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 572544005510 putative nucleotide binding site [chemical binding]; other site 572544005511 uridine monophosphate binding site [chemical binding]; other site 572544005512 homohexameric interface [polypeptide binding]; other site 572544005513 elongation factor Ts; Provisional; Region: tsf; PRK09377 572544005514 UBA/TS-N domain; Region: UBA; pfam00627 572544005515 Elongation factor TS; Region: EF_TS; pfam00889 572544005516 Elongation factor TS; Region: EF_TS; pfam00889 572544005517 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 572544005518 rRNA interaction site [nucleotide binding]; other site 572544005519 S8 interaction site; other site 572544005520 putative laminin-1 binding site; other site 572544005521 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 572544005522 Isochorismatase family; Region: Isochorismatase; pfam00857 572544005523 catalytic triad [active] 572544005524 metal binding site [ion binding]; metal-binding site 572544005525 conserved cis-peptide bond; other site 572544005526 biotin synthase; Provisional; Region: PRK07094 572544005527 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 572544005528 FeS/SAM binding site; other site 572544005529 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 572544005530 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 572544005531 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 572544005532 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 572544005533 alphaNTD homodimer interface [polypeptide binding]; other site 572544005534 alphaNTD - beta interaction site [polypeptide binding]; other site 572544005535 alphaNTD - beta' interaction site [polypeptide binding]; other site 572544005536 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 572544005537 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 572544005538 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 572544005539 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 572544005540 RNA binding surface [nucleotide binding]; other site 572544005541 30S ribosomal protein S11; Validated; Region: PRK05309 572544005542 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 572544005543 30S ribosomal protein S13; Region: bact_S13; TIGR03631 572544005544 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 572544005545 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 572544005546 rRNA binding site [nucleotide binding]; other site 572544005547 predicted 30S ribosome binding site; other site 572544005548 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 572544005549 active site 572544005550 adenylate kinase; Reviewed; Region: adk; PRK00279 572544005551 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 572544005552 AMP-binding site [chemical binding]; other site 572544005553 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 572544005554 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 572544005555 SecY translocase; Region: SecY; pfam00344 572544005556 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 572544005557 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 572544005558 23S rRNA binding site [nucleotide binding]; other site 572544005559 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 572544005560 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 572544005561 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 572544005562 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 572544005563 23S rRNA interface [nucleotide binding]; other site 572544005564 L21e interface [polypeptide binding]; other site 572544005565 5S rRNA interface [nucleotide binding]; other site 572544005566 L27 interface [polypeptide binding]; other site 572544005567 L5 interface [polypeptide binding]; other site 572544005568 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 572544005569 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 572544005570 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 572544005571 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 572544005572 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 572544005573 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 572544005574 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 572544005575 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 572544005576 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 572544005577 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 572544005578 RNA binding site [nucleotide binding]; other site 572544005579 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 572544005580 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 572544005581 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 572544005582 23S rRNA interface [nucleotide binding]; other site 572544005583 putative translocon interaction site; other site 572544005584 signal recognition particle (SRP54) interaction site; other site 572544005585 L23 interface [polypeptide binding]; other site 572544005586 trigger factor interaction site; other site 572544005587 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 572544005588 23S rRNA interface [nucleotide binding]; other site 572544005589 5S rRNA interface [nucleotide binding]; other site 572544005590 putative antibiotic binding site [chemical binding]; other site 572544005591 L25 interface [polypeptide binding]; other site 572544005592 L27 interface [polypeptide binding]; other site 572544005593 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 572544005594 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 572544005595 G-X-X-G motif; other site 572544005596 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 572544005597 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 572544005598 putative translocon binding site; other site 572544005599 protein-rRNA interface [nucleotide binding]; other site 572544005600 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 572544005601 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 572544005602 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 572544005603 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 572544005604 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 572544005605 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 572544005606 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 572544005607 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 572544005608 elongation factor Tu; Reviewed; Region: PRK00049 572544005609 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 572544005610 G1 box; other site 572544005611 GEF interaction site [polypeptide binding]; other site 572544005612 GTP/Mg2+ binding site [chemical binding]; other site 572544005613 Switch I region; other site 572544005614 G2 box; other site 572544005615 G3 box; other site 572544005616 Switch II region; other site 572544005617 G4 box; other site 572544005618 G5 box; other site 572544005619 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 572544005620 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 572544005621 Antibiotic Binding Site [chemical binding]; other site 572544005622 elongation factor G; Reviewed; Region: PRK00007 572544005623 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 572544005624 G1 box; other site 572544005625 putative GEF interaction site [polypeptide binding]; other site 572544005626 GTP/Mg2+ binding site [chemical binding]; other site 572544005627 Switch I region; other site 572544005628 G2 box; other site 572544005629 G3 box; other site 572544005630 Switch II region; other site 572544005631 G4 box; other site 572544005632 G5 box; other site 572544005633 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 572544005634 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 572544005635 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 572544005636 30S ribosomal protein S7; Validated; Region: PRK05302 572544005637 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 572544005638 S17 interaction site [polypeptide binding]; other site 572544005639 S8 interaction site; other site 572544005640 16S rRNA interaction site [nucleotide binding]; other site 572544005641 streptomycin interaction site [chemical binding]; other site 572544005642 23S rRNA interaction site [nucleotide binding]; other site 572544005643 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 572544005644 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 572544005645 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572544005646 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572544005647 ABC transporter; Region: ABC_tran_2; pfam12848 572544005648 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572544005649 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 572544005650 O-Antigen ligase; Region: Wzy_C; pfam04932 572544005651 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 572544005652 homotrimer interaction site [polypeptide binding]; other site 572544005653 zinc binding site [ion binding]; other site 572544005654 CDP-binding sites; other site 572544005655 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 572544005656 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 572544005657 putative ribose interaction site [chemical binding]; other site 572544005658 putative ADP binding site [chemical binding]; other site 572544005659 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 572544005660 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 572544005661 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 572544005662 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 572544005663 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 572544005664 ATP binding site [chemical binding]; other site 572544005665 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 572544005666 Competence protein A; Region: Competence_A; pfam11104 572544005667 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572544005668 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 572544005669 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 572544005670 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 572544005671 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 572544005672 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 572544005673 Walker A/P-loop; other site 572544005674 ATP binding site [chemical binding]; other site 572544005675 Q-loop/lid; other site 572544005676 ABC transporter signature motif; other site 572544005677 Walker B; other site 572544005678 D-loop; other site 572544005679 H-loop/switch region; other site 572544005680 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 572544005681 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572544005682 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 572544005683 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 572544005684 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 572544005685 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 572544005686 Walker A motif; other site 572544005687 ATP binding site [chemical binding]; other site 572544005688 Walker B motif; other site 572544005689 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 572544005690 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 572544005691 Walker A motif; other site 572544005692 ATP binding site [chemical binding]; other site 572544005693 Walker B motif; other site 572544005694 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 572544005695 DNA polymerase III subunit delta'; Validated; Region: PRK08485 572544005696 rod shape-determining protein MreB; Provisional; Region: PRK13930 572544005697 MreB and similar proteins; Region: MreB_like; cd10225 572544005698 nucleotide binding site [chemical binding]; other site 572544005699 Mg binding site [ion binding]; other site 572544005700 putative protofilament interaction site [polypeptide binding]; other site 572544005701 RodZ interaction site [polypeptide binding]; other site 572544005702 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; cl00258 572544005703 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 572544005704 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 572544005705 active site 572544005706 HIGH motif; other site 572544005707 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 572544005708 KMSKS motif; other site 572544005709 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 572544005710 tRNA binding surface [nucleotide binding]; other site 572544005711 anticodon binding site; other site 572544005712 Predicted amidohydrolase [General function prediction only]; Region: COG0388 572544005713 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_8; cd07586 572544005714 putative active site [active] 572544005715 catalytic triad [active] 572544005716 putative dimer interface [polypeptide binding]; other site 572544005717 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 572544005718 substrate binding site; other site 572544005719 dimer interface; other site 572544005720 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 572544005721 MutS domain III; Region: MutS_III; pfam05192 572544005722 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 572544005723 Walker A/P-loop; other site 572544005724 ATP binding site [chemical binding]; other site 572544005725 Q-loop/lid; other site 572544005726 ABC transporter signature motif; other site 572544005727 Walker B; other site 572544005728 D-loop; other site 572544005729 H-loop/switch region; other site 572544005730 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 572544005731 Smr domain; Region: Smr; pfam01713 572544005732 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 572544005733 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 572544005734 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 572544005735 cell division protein FtsZ; Validated; Region: PRK09330 572544005736 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 572544005737 nucleotide binding site [chemical binding]; other site 572544005738 SulA interaction site; other site 572544005739 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 572544005740 Cell division protein FtsA; Region: FtsA; smart00842 572544005741 Cell division protein FtsA; Region: FtsA; pfam14450 572544005742 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 572544005743 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 572544005744 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 572544005745 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572544005746 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 572544005747 FAD binding domain; Region: FAD_binding_4; pfam01565 572544005748 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 572544005749 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 572544005750 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 572544005751 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572544005752 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572544005753 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 572544005754 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 572544005755 active site 572544005756 homodimer interface [polypeptide binding]; other site 572544005757 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 572544005758 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572544005759 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572544005760 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 572544005761 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 572544005762 Mg++ binding site [ion binding]; other site 572544005763 putative catalytic motif [active] 572544005764 putative substrate binding site [chemical binding]; other site 572544005765 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 572544005766 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 572544005767 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 572544005768 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 572544005769 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 572544005770 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 572544005771 active site 572544005772 motif I; other site 572544005773 motif II; other site 572544005774 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 572544005775 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544005776 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 572544005777 ligand binding site [chemical binding]; other site 572544005778 flexible hinge region; other site 572544005779 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 572544005780 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 572544005781 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 572544005782 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 572544005783 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572544005784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544005785 Walker A/P-loop; other site 572544005786 ATP binding site [chemical binding]; other site 572544005787 Q-loop/lid; other site 572544005788 ABC transporter signature motif; other site 572544005789 Walker B; other site 572544005790 D-loop; other site 572544005791 H-loop/switch region; other site 572544005792 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 572544005793 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 572544005794 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 572544005795 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 572544005796 shikimate binding site; other site 572544005797 NAD(P) binding site [chemical binding]; other site 572544005798 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 572544005799 catalytic motif [active] 572544005800 Zn binding site [ion binding]; other site 572544005801 hybrid cluster protein; Provisional; Region: PRK05290 572544005802 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 572544005803 ACS interaction site; other site 572544005804 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 572544005805 hybrid metal cluster; other site 572544005806 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572544005807 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 572544005808 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572544005809 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 572544005810 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572544005811 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544005812 Zn2+ binding site [ion binding]; other site 572544005813 Mg2+ binding site [ion binding]; other site 572544005814 Smr domain; Region: Smr; pfam01713 572544005815 Protein of unknown function (DUF328); Region: DUF328; pfam03883 572544005816 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572544005817 EamA-like transporter family; Region: EamA; pfam00892 572544005818 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 572544005819 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 572544005820 Family description; Region: UvrD_C_2; pfam13538 572544005821 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 572544005822 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 572544005823 substrate binding pocket [chemical binding]; other site 572544005824 membrane-bound complex binding site; other site 572544005825 hinge residues; other site 572544005826 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 572544005827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544005828 dimer interface [polypeptide binding]; other site 572544005829 conserved gate region; other site 572544005830 ABC-ATPase subunit interface; other site 572544005831 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 572544005832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544005833 Walker A/P-loop; other site 572544005834 ATP binding site [chemical binding]; other site 572544005835 Q-loop/lid; other site 572544005836 ABC transporter signature motif; other site 572544005837 Walker B; other site 572544005838 D-loop; other site 572544005839 H-loop/switch region; other site 572544005840 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 572544005841 GIY-YIG motif/motif A; other site 572544005842 putative active site [active] 572544005843 putative metal binding site [ion binding]; other site 572544005844 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 572544005845 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 572544005846 tetramer interface [polypeptide binding]; other site 572544005847 TPP-binding site [chemical binding]; other site 572544005848 heterodimer interface [polypeptide binding]; other site 572544005849 phosphorylation loop region [posttranslational modification] 572544005850 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 572544005851 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 572544005852 alpha subunit interface [polypeptide binding]; other site 572544005853 TPP binding site [chemical binding]; other site 572544005854 heterodimer interface [polypeptide binding]; other site 572544005855 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572544005856 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 572544005857 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 572544005858 E3 interaction surface; other site 572544005859 lipoyl attachment site [posttranslational modification]; other site 572544005860 e3 binding domain; Region: E3_binding; pfam02817 572544005861 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 572544005862 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 572544005863 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 572544005864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544005865 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572544005866 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 572544005867 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 572544005868 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 572544005869 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 572544005870 dimer interface [polypeptide binding]; other site 572544005871 ADP-ribose binding site [chemical binding]; other site 572544005872 active site 572544005873 nudix motif; other site 572544005874 metal binding site [ion binding]; metal-binding site 572544005875 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 572544005876 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 572544005877 oligomer interface [polypeptide binding]; other site 572544005878 putative active site [active] 572544005879 metal binding site [ion binding]; metal-binding site 572544005880 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 572544005881 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 572544005882 active site 572544005883 dimer interface [polypeptide binding]; other site 572544005884 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 572544005885 dimer interface [polypeptide binding]; other site 572544005886 active site 572544005887 S-layer homology domain; Region: SLH; pfam00395 572544005888 SpoVG; Region: SpoVG; pfam04026 572544005889 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 572544005890 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]; Region: COG1188 572544005891 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 572544005892 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 572544005893 homodimer interface [polypeptide binding]; other site 572544005894 metal binding site [ion binding]; metal-binding site 572544005895 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 572544005896 homodimer interface [polypeptide binding]; other site 572544005897 active site 572544005898 putative chemical substrate binding site [chemical binding]; other site 572544005899 metal binding site [ion binding]; metal-binding site 572544005900 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 572544005901 DEAD-like helicases superfamily; Region: DEXDc; smart00487 572544005902 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 572544005903 ATP binding site [chemical binding]; other site 572544005904 putative Mg++ binding site [ion binding]; other site 572544005905 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 572544005906 nucleotide binding region [chemical binding]; other site 572544005907 ATP-binding site [chemical binding]; other site 572544005908 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 572544005909 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 572544005910 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 572544005911 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 572544005912 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 572544005913 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 572544005914 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 572544005915 trmE is a tRNA modification GTPase; Region: trmE; cd04164 572544005916 G1 box; other site 572544005917 GTP/Mg2+ binding site [chemical binding]; other site 572544005918 Switch I region; other site 572544005919 G2 box; other site 572544005920 Switch II region; other site 572544005921 G3 box; other site 572544005922 G4 box; other site 572544005923 G5 box; other site 572544005924 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 572544005925 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 572544005926 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 572544005927 G-X-X-G motif; other site 572544005928 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 572544005929 RxxxH motif; other site 572544005930 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 572544005931 hypothetical protein; Validated; Region: PRK00041 572544005932 Ribonuclease P; Region: Ribonuclease_P; pfam00825 572544005933 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 572544005934 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 572544005935 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 572544005936 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 572544005937 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 572544005938 putative catalytic site [active] 572544005939 putative metal binding site [ion binding]; other site 572544005940 putative phosphate binding site [ion binding]; other site 572544005941 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 572544005942 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 572544005943 Sugar specificity; other site 572544005944 Pyrimidine base specificity; other site 572544005945 ATP-binding site [chemical binding]; other site 572544005946 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 572544005947 non-specific DNA binding site [nucleotide binding]; other site 572544005948 salt bridge; other site 572544005949 sequence-specific DNA binding site [nucleotide binding]; other site 572544005950 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572544005951 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544005952 Zn2+ binding site [ion binding]; other site 572544005953 Mg2+ binding site [ion binding]; other site 572544005954 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572544005955 active site 572544005956 GMP synthase; Reviewed; Region: guaA; PRK00074 572544005957 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 572544005958 AMP/PPi binding site [chemical binding]; other site 572544005959 candidate oxyanion hole; other site 572544005960 catalytic triad [active] 572544005961 potential glutamine specificity residues [chemical binding]; other site 572544005962 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 572544005963 ATP Binding subdomain [chemical binding]; other site 572544005964 Ligand Binding sites [chemical binding]; other site 572544005965 Dimerization subdomain; other site 572544005966 YcfA-like protein; Region: YcfA; pfam07927 572544005967 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 572544005968 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 572544005969 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 572544005970 Baseplate J-like protein; Region: Baseplate_J; cl01294 572544005971 Baseplate J-like protein; Region: Baseplate_J; pfam04865 572544005972 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 572544005973 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 572544005974 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 572544005975 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 572544005976 Phage Tail Protein X; Region: Phage_tail_X; cl02088 572544005977 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 572544005978 Phage tail tube protein FII; Region: Phage_tube; cl01390 572544005979 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 572544005980 V-type ATP synthase subunit I; Validated; Region: PRK05771 572544005981 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 572544005982 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 572544005983 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 572544005984 oligomer interface [polypeptide binding]; other site 572544005985 Clp protease; Region: CLP_protease; pfam00574 572544005986 active site residues [active] 572544005987 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 572544005988 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 572544005989 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 572544005990 AntA/AntB antirepressor; Region: AntA; cl01430 572544005991 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 572544005992 Helix-turn-helix domain; Region: HTH_36; pfam13730 572544005993 non-specific DNA binding site [nucleotide binding]; other site 572544005994 salt bridge; other site 572544005995 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 572544005996 sequence-specific DNA binding site [nucleotide binding]; other site 572544005997 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 572544005998 non-specific DNA binding site [nucleotide binding]; other site 572544005999 salt bridge; other site 572544006000 sequence-specific DNA binding site [nucleotide binding]; other site 572544006001 Predicted transcriptional regulator [Transcription]; Region: COG2932 572544006002 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 572544006003 Catalytic site [active] 572544006004 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 572544006005 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 572544006006 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 572544006007 active site 572544006008 catalytic residues [active] 572544006009 DNA binding site [nucleotide binding] 572544006010 Int/Topo IB signature motif; other site 572544006011 integrase; Provisional; Region: int; PHA02601 572544006012 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 572544006013 Int/Topo IB signature motif; other site 572544006014 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 572544006015 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 572544006016 RNA binding surface [nucleotide binding]; other site 572544006017 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 572544006018 active site 572544006019 uracil binding [chemical binding]; other site 572544006020 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 572544006021 Domain of unknown function DUF20; Region: UPF0118; pfam01594 572544006022 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 572544006023 Rubredoxin; Region: Rubredoxin; pfam00301 572544006024 iron binding site [ion binding]; other site 572544006025 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 572544006026 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 572544006027 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544006028 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 572544006029 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 572544006030 P-loop; other site 572544006031 Magnesium ion binding site [ion binding]; other site 572544006032 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 572544006033 Magnesium ion binding site [ion binding]; other site 572544006034 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 572544006035 glycerol-3-phosphate dehydrogenase; Region: PLN02464 572544006036 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 572544006037 active site 572544006038 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 572544006039 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 572544006040 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 572544006041 active site 572544006042 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 572544006043 dimer interface [polypeptide binding]; other site 572544006044 FMN binding site [chemical binding]; other site 572544006045 Predicted membrane protein [Function unknown]; Region: COG1971 572544006046 Domain of unknown function DUF; Region: DUF204; pfam02659 572544006047 Domain of unknown function DUF; Region: DUF204; pfam02659 572544006048 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 572544006049 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 572544006050 active site 572544006051 ADP/pyrophosphate binding site [chemical binding]; other site 572544006052 dimerization interface [polypeptide binding]; other site 572544006053 allosteric effector site; other site 572544006054 fructose-1,6-bisphosphate binding site; other site 572544006055 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 572544006056 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 572544006057 catalytic loop [active] 572544006058 iron binding site [ion binding]; other site 572544006059 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 572544006060 FAD binding pocket [chemical binding]; other site 572544006061 conserved FAD binding motif [chemical binding]; other site 572544006062 phosphate binding motif [ion binding]; other site 572544006063 beta-alpha-beta structure motif; other site 572544006064 NAD binding pocket [chemical binding]; other site 572544006065 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 572544006066 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 572544006067 FMN-binding domain; Region: FMN_bind; cl01081 572544006068 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 572544006069 cell division protein FtsW; Region: ftsW; TIGR02614 572544006070 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 572544006071 asparagine synthetase B; Provisional; Region: asnB; PRK09431 572544006072 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 572544006073 dimer interface [polypeptide binding]; other site 572544006074 active site 572544006075 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 572544006076 Ligand Binding Site [chemical binding]; other site 572544006077 Molecular Tunnel; other site 572544006078 Bacterial protein of unknown function (DUF896); Region: DUF896; pfam05979 572544006079 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 572544006080 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 572544006081 putative dimer interface [polypeptide binding]; other site 572544006082 putative anticodon binding site; other site 572544006083 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 572544006084 homodimer interface [polypeptide binding]; other site 572544006085 motif 1; other site 572544006086 motif 2; other site 572544006087 active site 572544006088 motif 3; other site 572544006089 Predicted esterase [General function prediction only]; Region: COG0627 572544006090 S-formylglutathione hydrolase; Region: PLN02442 572544006091 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572544006092 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572544006093 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 572544006094 AzlC protein; Region: AzlC; pfam03591 572544006095 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 572544006096 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 572544006097 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 572544006098 Ligand Binding Site [chemical binding]; other site 572544006099 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 572544006100 active site 572544006101 phosphorylation site [posttranslational modification] 572544006102 Uncharacterized conserved protein [Function unknown]; Region: COG1359 572544006103 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 572544006104 homopentamer interface [polypeptide binding]; other site 572544006105 active site 572544006106 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 572544006107 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 572544006108 catalytic motif [active] 572544006109 Zn binding site [ion binding]; other site 572544006110 RibD C-terminal domain; Region: RibD_C; cl17279 572544006111 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 572544006112 Lumazine binding domain; Region: Lum_binding; pfam00677 572544006113 Lumazine binding domain; Region: Lum_binding; pfam00677 572544006114 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 572544006115 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 572544006116 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 572544006117 dimerization interface [polypeptide binding]; other site 572544006118 active site 572544006119 fumarate hydratase; Provisional; Region: PRK06246 572544006120 Fumarase C-terminus; Region: Fumerase_C; cl00795 572544006121 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 572544006122 Malic enzyme, N-terminal domain; Region: malic; pfam00390 572544006123 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 572544006124 putative NAD(P) binding site [chemical binding]; other site 572544006125 RmuC family; Region: RmuC; pfam02646 572544006126 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 572544006127 catalytic residues [active] 572544006128 Methyltransferase domain; Region: Methyltransf_23; pfam13489 572544006129 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544006130 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 572544006131 FeS/SAM binding site; other site 572544006132 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 572544006133 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 572544006134 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 572544006135 Protein of unknown function (DUF935); Region: DUF935; pfam06074 572544006136 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 572544006137 Phage terminase large subunit; Region: Terminase_3; cl12054 572544006138 Terminase small subunit; Region: Terminase_2; pfam03592 572544006139 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 572544006140 HTH domain; Region: HTH_11; cl17392 572544006141 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 572544006142 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; cl17220 572544006143 Fic/DOC family; Region: Fic; cl00960 572544006144 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 572544006145 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 572544006146 DNA methylase; Region: N6_N4_Mtase; pfam01555 572544006147 DNA methylase; Region: N6_N4_Mtase; cl17433 572544006148 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 572544006149 non-specific DNA binding site [nucleotide binding]; other site 572544006150 salt bridge; other site 572544006151 sequence-specific DNA binding site [nucleotide binding]; other site 572544006152 SOS regulatory protein LexA; Region: lexA; TIGR00498 572544006153 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 572544006154 Catalytic site [active] 572544006155 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 572544006156 RecT family; Region: RecT; cl04285 572544006157 GcrA cell cycle regulator; Region: GcrA; cl11564 572544006158 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 572544006159 Int/Topo IB signature motif; other site 572544006160 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 572544006161 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 572544006162 oxaloacetate decarboxylase; Provisional; Region: PRK12331 572544006163 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 572544006164 active site 572544006165 catalytic residues [active] 572544006166 metal binding site [ion binding]; metal-binding site 572544006167 homodimer binding site [polypeptide binding]; other site 572544006168 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 572544006169 putative efflux protein, MATE family; Region: matE; TIGR00797 572544006170 hypothetical protein; Provisional; Region: PRK10621 572544006171 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 572544006172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 572544006173 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 572544006174 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 572544006175 tartrate dehydrogenase; Region: TTC; TIGR02089 572544006176 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 572544006177 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 572544006178 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 572544006179 aconitate hydratase; Validated; Region: PRK07229 572544006180 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 572544006181 substrate binding site [chemical binding]; other site 572544006182 ligand binding site [chemical binding]; other site 572544006183 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 572544006184 substrate binding site [chemical binding]; other site 572544006185 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 572544006186 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_1; cd12161 572544006187 putative ligand binding site [chemical binding]; other site 572544006188 putative NAD binding site [chemical binding]; other site 572544006189 catalytic site [active] 572544006190 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 572544006191 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 572544006192 intersubunit interface [polypeptide binding]; other site 572544006193 active site 572544006194 Zn2+ binding site [ion binding]; other site 572544006195 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 572544006196 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 572544006197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 572544006198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 572544006199 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 572544006200 dimerization interface [polypeptide binding]; other site 572544006201 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 572544006202 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 572544006203 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 572544006204 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 572544006205 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 572544006206 FAD binding site [chemical binding]; other site 572544006207 homotetramer interface [polypeptide binding]; other site 572544006208 substrate binding pocket [chemical binding]; other site 572544006209 catalytic base [active] 572544006210 (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 572544006211 dimer interaction site [polypeptide binding]; other site 572544006212 substrate-binding tunnel; other site 572544006213 active site 572544006214 catalytic site [active] 572544006215 substrate binding site [chemical binding]; other site 572544006216 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 572544006217 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 572544006218 NAD(P) binding site [chemical binding]; other site 572544006219 homotetramer interface [polypeptide binding]; other site 572544006220 homodimer interface [polypeptide binding]; other site 572544006221 active site 572544006222 putative acyltransferase; Provisional; Region: PRK05790 572544006223 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 572544006224 dimer interface [polypeptide binding]; other site 572544006225 active site 572544006226 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 572544006227 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 572544006228 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544006229 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544006230 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 572544006231 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 572544006232 intersubunit interface [polypeptide binding]; other site 572544006233 active site 572544006234 zinc binding site [ion binding]; other site 572544006235 Na+ binding site [ion binding]; other site 572544006236 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 572544006237 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 572544006238 substrate binding site [chemical binding]; other site 572544006239 ATP binding site [chemical binding]; other site 572544006240 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572544006241 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 572544006242 TM-ABC transporter signature motif; other site 572544006243 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 572544006244 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 572544006245 Walker A/P-loop; other site 572544006246 ATP binding site [chemical binding]; other site 572544006247 Q-loop/lid; other site 572544006248 ABC transporter signature motif; other site 572544006249 Walker B; other site 572544006250 D-loop; other site 572544006251 H-loop/switch region; other site 572544006252 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 572544006253 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 572544006254 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 572544006255 putative ligand binding site [chemical binding]; other site 572544006256 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 572544006257 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 572544006258 PYR/PP interface [polypeptide binding]; other site 572544006259 dimer interface [polypeptide binding]; other site 572544006260 TPP binding site [chemical binding]; other site 572544006261 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 572544006262 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 572544006263 TPP-binding site; other site 572544006264 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 572544006265 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 572544006266 Metal-binding active site; metal-binding site 572544006267 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 572544006268 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 572544006269 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 572544006270 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 572544006271 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 572544006272 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 572544006273 KduI/IolB family; Region: KduI; cl01508 572544006274 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 572544006275 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 572544006276 Predicted membrane protein [Function unknown]; Region: COG2364 572544006277 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 572544006278 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 572544006279 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572544006280 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 572544006281 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 572544006282 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 572544006283 NADP binding site [chemical binding]; other site 572544006284 homodimer interface [polypeptide binding]; other site 572544006285 active site 572544006286 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572544006287 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572544006288 DNA binding site [nucleotide binding] 572544006289 domain linker motif; other site 572544006290 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 572544006291 dimerization interface [polypeptide binding]; other site 572544006292 ligand binding site [chemical binding]; other site 572544006293 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 572544006294 classical (c) SDRs; Region: SDR_c; cd05233 572544006295 NAD(P) binding site [chemical binding]; other site 572544006296 active site 572544006297 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 572544006298 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 572544006299 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 572544006300 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 572544006301 Na binding site [ion binding]; other site 572544006302 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572544006303 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544006304 Transcriptional regulators [Transcription]; Region: FadR; COG2186 572544006305 DNA-binding site [nucleotide binding]; DNA binding site 572544006306 FCD domain; Region: FCD; pfam07729 572544006307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 572544006308 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 572544006309 Domain of unknown function (DUF336); Region: DUF336; pfam03928 572544006310 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 572544006311 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572544006312 active site 572544006313 NAD binding site [chemical binding]; other site 572544006314 metal binding site [ion binding]; metal-binding site 572544006315 short chain dehydrogenase; Provisional; Region: PRK06172 572544006316 classical (c) SDRs; Region: SDR_c; cd05233 572544006317 NAD(P) binding site [chemical binding]; other site 572544006318 active site 572544006319 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 572544006320 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 572544006321 putative NAD(P) binding site [chemical binding]; other site 572544006322 catalytic Zn binding site [ion binding]; other site 572544006323 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 572544006324 Transcriptional regulator [Transcription]; Region: IclR; COG1414 572544006325 Bacterial transcriptional regulator; Region: IclR; pfam01614 572544006326 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 572544006327 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 572544006328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544006329 homodimer interface [polypeptide binding]; other site 572544006330 catalytic residue [active] 572544006331 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 572544006332 dimer interface [polypeptide binding]; other site 572544006333 FMN binding site [chemical binding]; other site 572544006334 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 572544006335 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 572544006336 FeS/SAM binding site; other site 572544006337 short chain dehydrogenase; Provisional; Region: PRK06197 572544006338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572544006339 NAD(P) binding site [chemical binding]; other site 572544006340 active site 572544006341 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 572544006342 metal ion-dependent adhesion site (MIDAS); other site 572544006343 photolyase PhrII; Region: phr2; TIGR00591 572544006344 DNA photolyase; Region: DNA_photolyase; pfam00875 572544006345 Protein of unknown function (DUF523); Region: DUF523; pfam04463 572544006346 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 572544006347 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 572544006348 Transcriptional regulator [Transcription]; Region: IclR; COG1414 572544006349 Bacterial transcriptional regulator; Region: IclR; pfam01614 572544006350 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 572544006351 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 572544006352 substrate binding site [chemical binding]; other site 572544006353 ATP binding site [chemical binding]; other site 572544006354 Entner-Doudoroff aldolase; Region: eda; TIGR01182 572544006355 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 572544006356 active site 572544006357 intersubunit interface [polypeptide binding]; other site 572544006358 catalytic residue [active] 572544006359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572544006360 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 572544006361 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 572544006362 active site 572544006363 DNA polymerase IV; Validated; Region: PRK02406 572544006364 DNA binding site [nucleotide binding] 572544006365 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 572544006366 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 572544006367 active site 572544006368 metal binding site [ion binding]; metal-binding site 572544006369 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544006370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544006371 active site 572544006372 phosphorylation site [posttranslational modification] 572544006373 intermolecular recognition site; other site 572544006374 dimerization interface [polypeptide binding]; other site 572544006375 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 572544006376 DNA binding site [nucleotide binding] 572544006377 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 572544006378 dimer interface [polypeptide binding]; other site 572544006379 phosphorylation site [posttranslational modification] 572544006380 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544006381 ATP binding site [chemical binding]; other site 572544006382 Mg2+ binding site [ion binding]; other site 572544006383 G-X-G motif; other site 572544006384 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 572544006385 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 572544006386 acyl-activating enzyme (AAE) consensus motif; other site 572544006387 putative AMP binding site [chemical binding]; other site 572544006388 putative active site [active] 572544006389 putative CoA binding site [chemical binding]; other site 572544006390 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 572544006391 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 572544006392 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 572544006393 putative acyl-acceptor binding pocket; other site 572544006394 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 572544006395 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 572544006396 acyl-activating enzyme (AAE) consensus motif; other site 572544006397 putative AMP binding site [chemical binding]; other site 572544006398 putative active site [active] 572544006399 putative CoA binding site [chemical binding]; other site 572544006400 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 572544006401 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 572544006402 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 572544006403 putative acyl-acceptor binding pocket; other site 572544006404 RNA polymerase sigma-H factor; Region: spore_sigH; TIGR02859 572544006405 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 572544006406 Transposase; Region: HTH_Tnp_1; cl17663 572544006407 putative transposase OrfB; Reviewed; Region: PHA02517 572544006408 HTH-like domain; Region: HTH_21; pfam13276 572544006409 Integrase core domain; Region: rve; pfam00665 572544006410 Integrase core domain; Region: rve_3; pfam13683 572544006411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 572544006412 PAS domain; Region: PAS_9; pfam13426 572544006413 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 572544006414 putative active site [active] 572544006415 heme pocket [chemical binding]; other site 572544006416 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544006417 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544006418 metal binding site [ion binding]; metal-binding site 572544006419 active site 572544006420 I-site; other site 572544006421 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 572544006422 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 572544006423 multifunctional aminopeptidase A; Provisional; Region: PRK00913 572544006424 interface (dimer of trimers) [polypeptide binding]; other site 572544006425 Substrate-binding/catalytic site; other site 572544006426 Zn-binding sites [ion binding]; other site 572544006427 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 572544006428 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 572544006429 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 572544006430 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 572544006431 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 572544006432 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 572544006433 putative active site [active] 572544006434 PhoH-like protein; Region: PhoH; cl17668 572544006435 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 572544006436 MPT binding site; other site 572544006437 trimer interface [polypeptide binding]; other site 572544006438 PBP superfamily domain; Region: PBP_like_2; cl17296 572544006439 PBP superfamily domain; Region: PBP_like_2; cl17296 572544006440 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 572544006441 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544006442 dimer interface [polypeptide binding]; other site 572544006443 conserved gate region; other site 572544006444 putative PBP binding loops; other site 572544006445 ABC-ATPase subunit interface; other site 572544006446 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 572544006447 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544006448 dimer interface [polypeptide binding]; other site 572544006449 conserved gate region; other site 572544006450 putative PBP binding loops; other site 572544006451 ABC-ATPase subunit interface; other site 572544006452 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 572544006453 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 572544006454 Walker A/P-loop; other site 572544006455 ATP binding site [chemical binding]; other site 572544006456 Q-loop/lid; other site 572544006457 ABC transporter signature motif; other site 572544006458 Walker B; other site 572544006459 D-loop; other site 572544006460 H-loop/switch region; other site 572544006461 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 572544006462 PhoU domain; Region: PhoU; pfam01895 572544006463 PhoU domain; Region: PhoU; pfam01895 572544006464 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544006465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544006466 active site 572544006467 phosphorylation site [posttranslational modification] 572544006468 intermolecular recognition site; other site 572544006469 dimerization interface [polypeptide binding]; other site 572544006470 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 572544006471 DNA binding site [nucleotide binding] 572544006472 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 572544006473 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 572544006474 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 572544006475 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 572544006476 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 572544006477 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 572544006478 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 572544006479 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 572544006480 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 572544006481 purine monophosphate binding site [chemical binding]; other site 572544006482 dimer interface [polypeptide binding]; other site 572544006483 putative catalytic residues [active] 572544006484 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 572544006485 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 572544006486 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 572544006487 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 572544006488 active site 572544006489 substrate binding site [chemical binding]; other site 572544006490 cosubstrate binding site; other site 572544006491 catalytic site [active] 572544006492 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 572544006493 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 572544006494 dimerization interface [polypeptide binding]; other site 572544006495 putative ATP binding site [chemical binding]; other site 572544006496 amidophosphoribosyltransferase; Provisional; Region: PRK05793 572544006497 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 572544006498 active site 572544006499 tetramer interface [polypeptide binding]; other site 572544006500 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572544006501 active site 572544006502 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 572544006503 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 572544006504 ATP binding site [chemical binding]; other site 572544006505 active site 572544006506 substrate binding site [chemical binding]; other site 572544006507 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 572544006508 ATP-grasp domain; Region: ATP-grasp; pfam02222 572544006509 AIR carboxylase; Region: AIRC; pfam00731 572544006510 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 572544006511 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 572544006512 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 572544006513 dimerization interface [polypeptide binding]; other site 572544006514 ATP binding site [chemical binding]; other site 572544006515 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 572544006516 dimerization interface [polypeptide binding]; other site 572544006517 ATP binding site [chemical binding]; other site 572544006518 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 572544006519 putative active site [active] 572544006520 catalytic triad [active] 572544006521 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 572544006522 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 572544006523 Potassium binding sites [ion binding]; other site 572544006524 Cesium cation binding sites [ion binding]; other site 572544006525 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 572544006526 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 572544006527 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 572544006528 catalytic site [active] 572544006529 subunit interface [polypeptide binding]; other site 572544006530 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 572544006531 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572544006532 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 572544006533 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 572544006534 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572544006535 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572544006536 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 572544006537 IMP binding site; other site 572544006538 dimer interface [polypeptide binding]; other site 572544006539 interdomain contacts; other site 572544006540 partial ornithine binding site; other site 572544006541 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_27; cd04686 572544006542 nudix motif; other site 572544006543 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 572544006544 PAS domain; Region: PAS_9; pfam13426 572544006545 putative active site [active] 572544006546 heme pocket [chemical binding]; other site 572544006547 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544006548 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544006549 active site 572544006550 I-site; other site 572544006551 metal binding site [ion binding]; metal-binding site 572544006552 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 572544006553 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 572544006554 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 572544006555 peptide binding site [polypeptide binding]; other site 572544006556 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572544006557 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544006558 dimer interface [polypeptide binding]; other site 572544006559 conserved gate region; other site 572544006560 putative PBP binding loops; other site 572544006561 ABC-ATPase subunit interface; other site 572544006562 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 572544006563 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 572544006564 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544006565 dimer interface [polypeptide binding]; other site 572544006566 conserved gate region; other site 572544006567 putative PBP binding loops; other site 572544006568 ABC-ATPase subunit interface; other site 572544006569 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 572544006570 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572544006571 Walker A/P-loop; other site 572544006572 ATP binding site [chemical binding]; other site 572544006573 Q-loop/lid; other site 572544006574 ABC transporter signature motif; other site 572544006575 Walker B; other site 572544006576 D-loop; other site 572544006577 H-loop/switch region; other site 572544006578 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 572544006579 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572544006580 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 572544006581 Walker A/P-loop; other site 572544006582 ATP binding site [chemical binding]; other site 572544006583 Q-loop/lid; other site 572544006584 ABC transporter signature motif; other site 572544006585 Walker B; other site 572544006586 D-loop; other site 572544006587 H-loop/switch region; other site 572544006588 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 572544006589 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 572544006590 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 572544006591 4Fe-4S binding domain; Region: Fer4; pfam00037 572544006592 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 572544006593 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 572544006594 FAD binding pocket [chemical binding]; other site 572544006595 FAD binding motif [chemical binding]; other site 572544006596 phosphate binding motif [ion binding]; other site 572544006597 beta-alpha-beta structure motif; other site 572544006598 NAD binding pocket [chemical binding]; other site 572544006599 Iron coordination center [ion binding]; other site 572544006600 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 572544006601 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 572544006602 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544006603 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 572544006604 ligand binding site [chemical binding]; other site 572544006605 flexible hinge region; other site 572544006606 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 572544006607 non-specific DNA interactions [nucleotide binding]; other site 572544006608 DNA binding site [nucleotide binding] 572544006609 sequence specific DNA binding site [nucleotide binding]; other site 572544006610 putative cAMP binding site [chemical binding]; other site 572544006611 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 572544006612 putative ADP-ribose binding site [chemical binding]; other site 572544006613 putative active site [active] 572544006614 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544006615 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 572544006616 putative active site [active] 572544006617 metal binding site [ion binding]; metal-binding site 572544006618 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 572544006619 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 572544006620 FAD binding pocket [chemical binding]; other site 572544006621 FAD binding motif [chemical binding]; other site 572544006622 phosphate binding motif [ion binding]; other site 572544006623 beta-alpha-beta structure motif; other site 572544006624 NAD binding pocket [chemical binding]; other site 572544006625 Iron coordination center [ion binding]; other site 572544006626 putative oxidoreductase; Provisional; Region: PRK12831 572544006627 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 572544006628 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544006629 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 572544006630 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 572544006631 putative active site [active] 572544006632 heme pocket [chemical binding]; other site 572544006633 PAS domain S-box; Region: sensory_box; TIGR00229 572544006634 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 572544006635 putative active site [active] 572544006636 heme pocket [chemical binding]; other site 572544006637 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544006638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544006639 metal binding site [ion binding]; metal-binding site 572544006640 active site 572544006641 I-site; other site 572544006642 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 572544006643 S-ribosylhomocysteinase; Provisional; Region: PRK02260 572544006644 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 572544006645 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 572544006646 Walker A/P-loop; other site 572544006647 ATP binding site [chemical binding]; other site 572544006648 Q-loop/lid; other site 572544006649 ABC transporter signature motif; other site 572544006650 Walker B; other site 572544006651 D-loop; other site 572544006652 H-loop/switch region; other site 572544006653 TOBE domain; Region: TOBE; pfam03459 572544006654 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 572544006655 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 572544006656 zinc binding site [ion binding]; other site 572544006657 putative ligand binding site [chemical binding]; other site 572544006658 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 572544006659 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 572544006660 zinc binding site [ion binding]; other site 572544006661 putative ligand binding site [chemical binding]; other site 572544006662 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 572544006663 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 572544006664 TM-ABC transporter signature motif; other site 572544006665 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 572544006666 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544006667 Walker A/P-loop; other site 572544006668 ATP binding site [chemical binding]; other site 572544006669 Q-loop/lid; other site 572544006670 ABC transporter signature motif; other site 572544006671 Walker B; other site 572544006672 D-loop; other site 572544006673 H-loop/switch region; other site 572544006674 WYL domain; Region: WYL; pfam13280 572544006675 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572544006676 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 572544006677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544006678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544006679 metal binding site [ion binding]; metal-binding site 572544006680 active site 572544006681 I-site; other site 572544006682 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572544006683 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 572544006684 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 572544006685 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 572544006686 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544006687 S-adenosylmethionine binding site [chemical binding]; other site 572544006688 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 572544006689 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 572544006690 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 572544006691 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 572544006692 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544006693 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 572544006694 ligand binding site [chemical binding]; other site 572544006695 flexible hinge region; other site 572544006696 putative recombination protein RecB; Provisional; Region: PRK13909 572544006697 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 572544006698 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 572544006699 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 572544006700 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 572544006701 transmembrane helices; other site 572544006702 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544006703 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544006704 metal binding site [ion binding]; metal-binding site 572544006705 active site 572544006706 I-site; other site 572544006707 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 572544006708 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572544006709 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 572544006710 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 572544006711 active site 572544006712 metal binding site [ion binding]; metal-binding site 572544006713 DNA binding site [nucleotide binding] 572544006714 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 572544006715 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 572544006716 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544006717 Walker A/P-loop; other site 572544006718 ATP binding site [chemical binding]; other site 572544006719 Q-loop/lid; other site 572544006720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544006721 ABC transporter signature motif; other site 572544006722 Walker B; other site 572544006723 D-loop; other site 572544006724 H-loop/switch region; other site 572544006725 Methyltransferase domain; Region: Methyltransf_32; pfam13679 572544006726 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572544006727 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 572544006728 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 572544006729 FMN binding site [chemical binding]; other site 572544006730 substrate binding site [chemical binding]; other site 572544006731 putative catalytic residue [active] 572544006732 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 572544006733 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 572544006734 FMN binding site [chemical binding]; other site 572544006735 substrate binding site [chemical binding]; other site 572544006736 putative catalytic residue [active] 572544006737 putative hydrolase; Validated; Region: PRK09248 572544006738 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 572544006739 active site 572544006740 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 572544006741 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544006742 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 572544006743 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 572544006744 active site 572544006745 dimer interface [polypeptide binding]; other site 572544006746 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 572544006747 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 572544006748 active site 572544006749 FMN binding site [chemical binding]; other site 572544006750 substrate binding site [chemical binding]; other site 572544006751 3Fe-4S cluster binding site [ion binding]; other site 572544006752 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 572544006753 domain interface; other site 572544006754 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 572544006755 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572544006756 catalytic residue [active] 572544006757 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 572544006758 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 572544006759 active site 572544006760 motif I; other site 572544006761 motif II; other site 572544006762 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 572544006763 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 572544006764 dimer interface [polypeptide binding]; other site 572544006765 active site 572544006766 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572544006767 substrate binding site [chemical binding]; other site 572544006768 catalytic residue [active] 572544006769 Transposase; Region: HTH_Tnp_1; cl17663 572544006770 putative transposase OrfB; Reviewed; Region: PHA02517 572544006771 HTH-like domain; Region: HTH_21; pfam13276 572544006772 Integrase core domain; Region: rve; pfam00665 572544006773 Integrase core domain; Region: rve_3; pfam13683 572544006774 GAF domain; Region: GAF_2; pfam13185 572544006775 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572544006776 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544006777 Zn2+ binding site [ion binding]; other site 572544006778 Mg2+ binding site [ion binding]; other site 572544006779 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 572544006780 Initiator Replication protein; Region: Rep_3; cl17676 572544006781 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 572544006782 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 572544006783 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 572544006784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572544006785 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 572544006786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 572544006787 Transposase; Region: HTH_Tnp_1; cl17663 572544006788 putative transposase OrfB; Reviewed; Region: PHA02517 572544006789 HTH-like domain; Region: HTH_21; pfam13276 572544006790 Integrase core domain; Region: rve; pfam00665 572544006791 Integrase core domain; Region: rve_3; pfam13683 572544006792 Transcriptional regulators [Transcription]; Region: PurR; COG1609 572544006793 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 572544006794 DNA binding site [nucleotide binding] 572544006795 domain linker motif; other site 572544006796 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 572544006797 dimerization interface [polypeptide binding]; other site 572544006798 ligand binding site [chemical binding]; other site 572544006799 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 572544006800 HPr interaction site; other site 572544006801 glycerol kinase (GK) interaction site [polypeptide binding]; other site 572544006802 active site 572544006803 phosphorylation site [posttranslational modification] 572544006804 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 572544006805 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 572544006806 active site turn [active] 572544006807 phosphorylation site [posttranslational modification] 572544006808 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 572544006809 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 572544006810 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 572544006811 substrate binding [chemical binding]; other site 572544006812 active site 572544006813 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 572544006814 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 572544006815 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 572544006816 putative substrate binding site [chemical binding]; other site 572544006817 putative ATP binding site [chemical binding]; other site 572544006818 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 572544006819 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 572544006820 Ligand Binding Site [chemical binding]; other site 572544006821 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 572544006822 active site 572544006823 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 572544006824 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 572544006825 FeS/SAM binding site; other site 572544006826 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 572544006827 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 572544006828 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 572544006829 4Fe-4S binding domain; Region: Fer4_5; pfam12801 572544006830 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 572544006831 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 572544006832 FMN-binding domain; Region: FMN_bind; cl01081 572544006833 Ferredoxin [Energy production and conversion]; Region: COG1146 572544006834 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544006835 FAD binding domain; Region: FAD_binding_2; pfam00890 572544006836 L-aspartate oxidase; Provisional; Region: PRK06175 572544006837 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 572544006838 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 572544006839 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 572544006840 L-aspartate oxidase; Provisional; Region: PRK06175 572544006841 putative oxidoreductase; Provisional; Region: PRK08275 572544006842 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 572544006843 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 572544006844 L-aspartate oxidase; Provisional; Region: PRK06175 572544006845 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 572544006846 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 572544006847 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 572544006848 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 572544006849 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 572544006850 Domain of unknown function (DUF697); Region: DUF697; pfam05128 572544006851 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 572544006852 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 572544006853 active site 572544006854 metal binding site [ion binding]; metal-binding site 572544006855 Predicted transcriptional regulators [Transcription]; Region: COG1733 572544006856 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 572544006857 dimerization interface [polypeptide binding]; other site 572544006858 putative DNA binding site [nucleotide binding]; other site 572544006859 putative Zn2+ binding site [ion binding]; other site 572544006860 Predicted dehydrogenase [General function prediction only]; Region: COG0579 572544006861 hydroxyglutarate oxidase; Provisional; Region: PRK11728 572544006862 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 572544006863 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 572544006864 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 572544006865 ligand binding site [chemical binding]; other site 572544006866 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 572544006867 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 572544006868 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 572544006869 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 572544006870 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 572544006871 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 572544006872 CPxP motif; other site 572544006873 DsrE/DsrF-like family; Region: DrsE; pfam02635 572544006874 selenophosphate synthetase; Provisional; Region: PRK00943 572544006875 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 572544006876 dimerization interface [polypeptide binding]; other site 572544006877 putative ATP binding site [chemical binding]; other site 572544006878 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 572544006879 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572544006880 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544006881 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 572544006882 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 572544006883 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 572544006884 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 572544006885 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 572544006886 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 572544006887 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 572544006888 putative active site [active] 572544006889 heme pocket [chemical binding]; other site 572544006890 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 572544006891 dimer interface [polypeptide binding]; other site 572544006892 phosphorylation site [posttranslational modification] 572544006893 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544006894 ATP binding site [chemical binding]; other site 572544006895 Mg2+ binding site [ion binding]; other site 572544006896 G-X-G motif; other site 572544006897 Response regulator receiver domain; Region: Response_reg; pfam00072 572544006898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544006899 active site 572544006900 phosphorylation site [posttranslational modification] 572544006901 intermolecular recognition site; other site 572544006902 dimerization interface [polypeptide binding]; other site 572544006903 Response regulator receiver domain; Region: Response_reg; pfam00072 572544006904 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544006905 active site 572544006906 phosphorylation site [posttranslational modification] 572544006907 intermolecular recognition site; other site 572544006908 dimerization interface [polypeptide binding]; other site 572544006909 Response regulator receiver domain; Region: Response_reg; pfam00072 572544006910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544006911 active site 572544006912 phosphorylation site [posttranslational modification] 572544006913 intermolecular recognition site; other site 572544006914 dimerization interface [polypeptide binding]; other site 572544006915 Response regulator receiver domain; Region: Response_reg; pfam00072 572544006916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544006917 active site 572544006918 phosphorylation site [posttranslational modification] 572544006919 intermolecular recognition site; other site 572544006920 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544006921 dimerization interface [polypeptide binding]; other site 572544006922 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 572544006923 dimer interface [polypeptide binding]; other site 572544006924 phosphorylation site [posttranslational modification] 572544006925 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544006926 ATP binding site [chemical binding]; other site 572544006927 Mg2+ binding site [ion binding]; other site 572544006928 G-X-G motif; other site 572544006929 Response regulator receiver domain; Region: Response_reg; pfam00072 572544006930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544006931 active site 572544006932 phosphorylation site [posttranslational modification] 572544006933 intermolecular recognition site; other site 572544006934 dimerization interface [polypeptide binding]; other site 572544006935 PAS domain S-box; Region: sensory_box; TIGR00229 572544006936 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 572544006937 putative active site [active] 572544006938 heme pocket [chemical binding]; other site 572544006939 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544006940 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544006941 metal binding site [ion binding]; metal-binding site 572544006942 active site 572544006943 I-site; other site 572544006944 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 572544006945 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544006946 Zn2+ binding site [ion binding]; other site 572544006947 Mg2+ binding site [ion binding]; other site 572544006948 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 572544006949 dimerization interface [polypeptide binding]; other site 572544006950 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544006951 Zn2+ binding site [ion binding]; other site 572544006952 Mg2+ binding site [ion binding]; other site 572544006953 NMT1/THI5 like; Region: NMT1; pfam09084 572544006954 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 572544006955 substrate binding pocket [chemical binding]; other site 572544006956 membrane-bound complex binding site; other site 572544006957 hinge residues; other site 572544006958 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 572544006959 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 572544006960 substrate binding site; other site 572544006961 tetramer interface; other site 572544006962 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 572544006963 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 572544006964 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 572544006965 NADP binding site [chemical binding]; other site 572544006966 active site 572544006967 putative substrate binding site [chemical binding]; other site 572544006968 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 572544006969 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 572544006970 NAD binding site [chemical binding]; other site 572544006971 substrate binding site [chemical binding]; other site 572544006972 homodimer interface [polypeptide binding]; other site 572544006973 active site 572544006974 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 572544006975 active site 572544006976 catalytic triad [active] 572544006977 oxyanion hole [active] 572544006978 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 572544006979 ligand binding site [chemical binding]; other site 572544006980 active site 572544006981 UGI interface [polypeptide binding]; other site 572544006982 catalytic site [active] 572544006983 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 572544006984 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 572544006985 amidase catalytic site [active] 572544006986 Zn binding residues [ion binding]; other site 572544006987 substrate binding site [chemical binding]; other site 572544006988 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 572544006989 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 572544006990 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 572544006991 dimerization interface [polypeptide binding]; other site 572544006992 active site 572544006993 L-aspartate oxidase; Provisional; Region: PRK06175 572544006994 FAD binding domain; Region: FAD_binding_2; pfam00890 572544006995 Quinolinate synthetase A protein; Region: NadA; pfam02445 572544006996 Carbon starvation protein CstA; Region: CstA; pfam02554 572544006997 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 572544006998 Carbon starvation protein CstA; Region: CstA; pfam02554 572544006999 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 572544007000 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 572544007001 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 572544007002 oligomer interface [polypeptide binding]; other site 572544007003 metal binding site [ion binding]; metal-binding site 572544007004 metal binding site [ion binding]; metal-binding site 572544007005 Cl binding site [ion binding]; other site 572544007006 aspartate ring; other site 572544007007 basic sphincter; other site 572544007008 putative hydrophobic gate; other site 572544007009 periplasmic entrance; other site 572544007010 Mth938 domain. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. The function of the...; Region: Mth938; cd05126 572544007011 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 572544007012 catalytic core [active] 572544007013 VanZ like family; Region: VanZ; pfam04892 572544007014 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572544007015 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 572544007016 motif II; other site 572544007017 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 572544007018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 572544007019 SEC-C motif; Region: SEC-C; pfam02810 572544007020 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 572544007021 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 572544007022 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 572544007023 30S subunit binding site; other site 572544007024 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 572544007025 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 572544007026 substrate binding pocket [chemical binding]; other site 572544007027 membrane-bound complex binding site; other site 572544007028 hinge residues; other site 572544007029 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544007030 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 572544007031 dimer interface [polypeptide binding]; other site 572544007032 phosphorylation site [posttranslational modification] 572544007033 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544007034 ATP binding site [chemical binding]; other site 572544007035 Mg2+ binding site [ion binding]; other site 572544007036 G-X-G motif; other site 572544007037 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 572544007038 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544007039 S-adenosylmethionine binding site [chemical binding]; other site 572544007040 CHASE4 domain; Region: CHASE4; pfam05228 572544007041 HAMP domain; Region: HAMP; pfam00672 572544007042 dimerization interface [polypeptide binding]; other site 572544007043 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544007044 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544007045 metal binding site [ion binding]; metal-binding site 572544007046 active site 572544007047 I-site; other site 572544007048 putative transporter; Provisional; Region: PRK11660 572544007049 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 572544007050 Sulfate transporter family; Region: Sulfate_transp; pfam00916 572544007051 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 572544007052 Sensory domain found in PocR; Region: PocR; pfam10114 572544007053 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 572544007054 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544007055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544007056 active site 572544007057 phosphorylation site [posttranslational modification] 572544007058 intermolecular recognition site; other site 572544007059 dimerization interface [polypeptide binding]; other site 572544007060 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 572544007061 DNA binding site [nucleotide binding] 572544007062 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544007063 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 572544007064 dimer interface [polypeptide binding]; other site 572544007065 phosphorylation site [posttranslational modification] 572544007066 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544007067 ATP binding site [chemical binding]; other site 572544007068 Mg2+ binding site [ion binding]; other site 572544007069 G-X-G motif; other site 572544007070 Response regulator receiver domain; Region: Response_reg; pfam00072 572544007071 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544007072 active site 572544007073 phosphorylation site [posttranslational modification] 572544007074 intermolecular recognition site; other site 572544007075 dimerization interface [polypeptide binding]; other site 572544007076 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 572544007077 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 572544007078 SLBB domain; Region: SLBB; pfam10531 572544007079 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 572544007080 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 572544007081 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 572544007082 putative hexamer interface [polypeptide binding]; other site 572544007083 putative hexagonal pore; other site 572544007084 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 572544007085 putative hexamer interface [polypeptide binding]; other site 572544007086 putative hexagonal pore; other site 572544007087 Predicted kinase [General function prediction only]; Region: COG4857; cl17281 572544007088 Phosphotransferase enzyme family; Region: APH; pfam01636 572544007089 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544007090 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572544007091 active site 572544007092 NAD binding site [chemical binding]; other site 572544007093 metal binding site [ion binding]; metal-binding site 572544007094 propanediol utilization protein PduB; Provisional; Region: PRK15415 572544007095 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 572544007096 putative hexamer interface [polypeptide binding]; other site 572544007097 putative hexagonal pore; other site 572544007098 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 572544007099 putative hexamer interface [polypeptide binding]; other site 572544007100 putative hexagonal pore; other site 572544007101 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 572544007102 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 572544007103 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 572544007104 alpha-beta subunit interface [polypeptide binding]; other site 572544007105 alpha-gamma subunit interface [polypeptide binding]; other site 572544007106 active site 572544007107 substrate and K+ binding site; other site 572544007108 K+ binding site [ion binding]; other site 572544007109 cobalamin binding site [chemical binding]; other site 572544007110 propanediol dehydratase medium subunit; Provisional; Region: pduD; PRK15042 572544007111 propanediol dehydratase small subunit; Provisional; Region: pduE; PRK15443 572544007112 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 572544007113 Dehydratase medium subunit; Region: Dehydratase_MU; cl17703 572544007114 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 572544007115 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 572544007116 Hexamer interface [polypeptide binding]; other site 572544007117 Hexagonal pore residue; other site 572544007118 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 572544007119 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 572544007120 Hexamer interface [polypeptide binding]; other site 572544007121 Hexagonal pore residue; other site 572544007122 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 572544007123 Propanediol utilisation protein PduL; Region: PduL; pfam06130 572544007124 Propanediol utilisation protein PduL; Region: PduL; pfam06130 572544007125 Flavoprotein; Region: Flavoprotein; cl08021 572544007126 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 572544007127 Hexamer/Pentamer interface [polypeptide binding]; other site 572544007128 central pore; other site 572544007129 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 572544007130 Domain of unknown function (DUF336); Region: DUF336; pfam03928 572544007131 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 572544007132 putative catalytic cysteine [active] 572544007133 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 572544007134 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 572544007135 Hexamer interface [polypeptide binding]; other site 572544007136 Hexagonal pore residue; other site 572544007137 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 572544007138 putative hexamer interface [polypeptide binding]; other site 572544007139 putative hexagonal pore; other site 572544007140 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 572544007141 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 572544007142 nucleotide binding site [chemical binding]; other site 572544007143 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572544007144 nucleotide binding site [chemical binding]; other site 572544007145 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 572544007146 amphipathic channel; other site 572544007147 Asn-Pro-Ala signature motifs; other site 572544007148 Predicted membrane protein [Function unknown]; Region: COG1971 572544007149 Domain of unknown function DUF; Region: DUF204; pfam02659 572544007150 Domain of unknown function DUF; Region: DUF204; pfam02659 572544007151 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 572544007152 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 572544007153 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 572544007154 catalytic triad [active] 572544007155 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 572544007156 Precorrin-8X methylmutase; Region: CbiC; pfam02570 572544007157 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 572544007158 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 572544007159 active site 572544007160 putative homodimer interface [polypeptide binding]; other site 572544007161 SAM binding site [chemical binding]; other site 572544007162 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 572544007163 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544007164 S-adenosylmethionine binding site [chemical binding]; other site 572544007165 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 572544007166 active site 572544007167 SAM binding site [chemical binding]; other site 572544007168 homodimer interface [polypeptide binding]; other site 572544007169 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 572544007170 active site 572544007171 SAM binding site [chemical binding]; other site 572544007172 homodimer interface [polypeptide binding]; other site 572544007173 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 572544007174 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 572544007175 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 572544007176 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 572544007177 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 572544007178 active site 572544007179 SAM binding site [chemical binding]; other site 572544007180 homodimer interface [polypeptide binding]; other site 572544007181 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 572544007182 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 572544007183 cobyric acid synthase; Provisional; Region: PRK00784 572544007184 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 572544007185 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 572544007186 catalytic triad [active] 572544007187 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 572544007188 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 572544007189 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 572544007190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007191 homodimer interface [polypeptide binding]; other site 572544007192 catalytic residue [active] 572544007193 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 572544007194 glutamyl-tRNA reductase; Validated; Region: hemA; PRK00676 572544007195 tRNA; other site 572544007196 putative tRNA binding site [nucleotide binding]; other site 572544007197 putative NADP binding site [chemical binding]; other site 572544007198 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 572544007199 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; cl17708 572544007200 domain interfaces; other site 572544007201 active site 572544007202 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 572544007203 active site 572544007204 SAM binding site [chemical binding]; other site 572544007205 homodimer interface [polypeptide binding]; other site 572544007206 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 572544007207 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 572544007208 active site 572544007209 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 572544007210 dimer interface [polypeptide binding]; other site 572544007211 active site 572544007212 Schiff base residues; other site 572544007213 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 572544007214 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 572544007215 inhibitor-cofactor binding pocket; inhibition site 572544007216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007217 catalytic residue [active] 572544007218 glutaminase A; Region: Gln_ase; TIGR03814 572544007219 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 572544007220 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 572544007221 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 572544007222 active site 572544007223 dimer interface [polypeptide binding]; other site 572544007224 metal binding site [ion binding]; metal-binding site 572544007225 glutathione binding site [chemical binding]; other site 572544007226 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 572544007227 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 572544007228 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572544007229 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 572544007230 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_1; cd13140 572544007231 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 572544007232 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 572544007233 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544007234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544007235 metal binding site [ion binding]; metal-binding site 572544007236 active site 572544007237 I-site; other site 572544007238 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 572544007239 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 572544007240 HlyD family secretion protein; Region: HlyD_3; pfam13437 572544007241 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 572544007242 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 572544007243 ABC-ATPase subunit interface; other site 572544007244 dimer interface [polypeptide binding]; other site 572544007245 putative PBP binding regions; other site 572544007246 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 572544007247 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 572544007248 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 572544007249 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 572544007250 intersubunit interface [polypeptide binding]; other site 572544007251 CHASE domain; Region: CHASE; cl01369 572544007252 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544007253 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544007254 metal binding site [ion binding]; metal-binding site 572544007255 active site 572544007256 I-site; other site 572544007257 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 572544007258 dimerization interface [polypeptide binding]; other site 572544007259 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544007260 Zn2+ binding site [ion binding]; other site 572544007261 Mg2+ binding site [ion binding]; other site 572544007262 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 572544007263 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 572544007264 substrate binding pocket [chemical binding]; other site 572544007265 membrane-bound complex binding site; other site 572544007266 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 572544007267 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 572544007268 PAS domain; Region: PAS; smart00091 572544007269 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544007270 ATP binding site [chemical binding]; other site 572544007271 Mg2+ binding site [ion binding]; other site 572544007272 G-X-G motif; other site 572544007273 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 572544007274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544007275 active site 572544007276 phosphorylation site [posttranslational modification] 572544007277 intermolecular recognition site; other site 572544007278 dimerization interface [polypeptide binding]; other site 572544007279 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 572544007280 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 572544007281 PAS domain; Region: PAS_9; pfam13426 572544007282 putative active site [active] 572544007283 heme pocket [chemical binding]; other site 572544007284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544007285 active site 572544007286 I-site; other site 572544007287 metal binding site [ion binding]; metal-binding site 572544007288 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 572544007289 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 572544007290 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572544007291 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544007292 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572544007293 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 572544007294 peroxiredoxin; Region: AhpC; TIGR03137 572544007295 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 572544007296 dimer interface [polypeptide binding]; other site 572544007297 decamer (pentamer of dimers) interface [polypeptide binding]; other site 572544007298 catalytic triad [active] 572544007299 peroxidatic and resolving cysteines [active] 572544007300 DJ-1 family protein; Region: not_thiJ; TIGR01383 572544007301 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 572544007302 conserved cys residue [active] 572544007303 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 572544007304 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 572544007305 prephenate dehydrogenase; Validated; Region: PRK08507 572544007306 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 572544007307 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 572544007308 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 572544007309 hinge; other site 572544007310 active site 572544007311 Chorismate mutase type II; Region: CM_2; cl00693 572544007312 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 572544007313 Prephenate dehydratase; Region: PDT; pfam00800 572544007314 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 572544007315 putative L-Phe binding site [chemical binding]; other site 572544007316 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 572544007317 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 572544007318 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007319 homodimer interface [polypeptide binding]; other site 572544007320 catalytic residue [active] 572544007321 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 572544007322 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 572544007323 Tetramer interface [polypeptide binding]; other site 572544007324 active site 572544007325 FMN-binding site [chemical binding]; other site 572544007326 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 572544007327 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 572544007328 ADP binding site [chemical binding]; other site 572544007329 magnesium binding site [ion binding]; other site 572544007330 putative shikimate binding site; other site 572544007331 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 572544007332 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 572544007333 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 572544007334 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 572544007335 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 572544007336 glutamine binding [chemical binding]; other site 572544007337 catalytic triad [active] 572544007338 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 572544007339 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 572544007340 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 572544007341 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 572544007342 active site 572544007343 ribulose/triose binding site [chemical binding]; other site 572544007344 phosphate binding site [ion binding]; other site 572544007345 substrate (anthranilate) binding pocket [chemical binding]; other site 572544007346 product (indole) binding pocket [chemical binding]; other site 572544007347 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 572544007348 active site 572544007349 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 572544007350 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 572544007351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007352 catalytic residue [active] 572544007353 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 572544007354 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 572544007355 substrate binding site [chemical binding]; other site 572544007356 active site 572544007357 catalytic residues [active] 572544007358 heterodimer interface [polypeptide binding]; other site 572544007359 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 572544007360 catalytic residues [active] 572544007361 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 572544007362 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 572544007363 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 572544007364 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 572544007365 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 572544007366 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 572544007367 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 572544007368 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 572544007369 homodimer interface [polypeptide binding]; other site 572544007370 substrate-cofactor binding pocket; other site 572544007371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007372 catalytic residue [active] 572544007373 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 572544007374 FAD binding site [chemical binding]; other site 572544007375 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 572544007376 conserved cys residue [active] 572544007377 aspartate kinase; Reviewed; Region: PRK06635 572544007378 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 572544007379 putative nucleotide binding site [chemical binding]; other site 572544007380 putative catalytic residues [active] 572544007381 putative Mg ion binding site [ion binding]; other site 572544007382 putative aspartate binding site [chemical binding]; other site 572544007383 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 572544007384 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 572544007385 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 572544007386 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 572544007387 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 572544007388 substrate binding pocket [chemical binding]; other site 572544007389 dimer interface [polypeptide binding]; other site 572544007390 inhibitor binding site; inhibition site 572544007391 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 572544007392 B12 binding site [chemical binding]; other site 572544007393 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 572544007394 Rrf2 family protein; Region: rrf2_super; TIGR00738 572544007395 Transcriptional regulator; Region: Rrf2; pfam02082 572544007396 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572544007397 EamA-like transporter family; Region: EamA; pfam00892 572544007398 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 572544007399 DNA-binding site [nucleotide binding]; DNA binding site 572544007400 RNA-binding motif; other site 572544007401 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 572544007402 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 572544007403 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 572544007404 Uncharacterized conserved protein [Function unknown]; Region: COG4095 572544007405 Protein of unknown function (DUF554); Region: DUF554; pfam04474 572544007406 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544007407 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 572544007408 ligand binding site [chemical binding]; other site 572544007409 flexible hinge region; other site 572544007410 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 572544007411 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 572544007412 active site 572544007413 catalytic residues [active] 572544007414 DNA binding site [nucleotide binding] 572544007415 Int/Topo IB signature motif; other site 572544007416 GIY-YIG domain of uncharacterized hypothetical protein found in phycodnavirus PBCV-1 DNA virus, T. thermophila Tlr element eoncoding protein Tlr8p, and similar proteins found in bacteria; Region: GIY-YIG_HE_Tlr8p_PBC-V_like; cd10443 572544007417 GIY-YIG motif/motif A; other site 572544007418 putative active site [active] 572544007419 putative metal binding site [ion binding]; other site 572544007420 PGAP1-like protein; Region: PGAP1; pfam07819 572544007421 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544007422 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 572544007423 dimer interface [polypeptide binding]; other site 572544007424 phosphorylation site [posttranslational modification] 572544007425 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544007426 ATP binding site [chemical binding]; other site 572544007427 Mg2+ binding site [ion binding]; other site 572544007428 G-X-G motif; other site 572544007429 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544007430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544007431 active site 572544007432 phosphorylation site [posttranslational modification] 572544007433 intermolecular recognition site; other site 572544007434 dimerization interface [polypeptide binding]; other site 572544007435 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 572544007436 DNA binding site [nucleotide binding] 572544007437 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 572544007438 Ligand binding site; other site 572544007439 Putative Catalytic site; other site 572544007440 DXD motif; other site 572544007441 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 572544007442 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 572544007443 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 572544007444 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 572544007445 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 572544007446 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572544007447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572544007448 NAD(P) binding site [chemical binding]; other site 572544007449 active site 572544007450 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544007451 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544007452 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 572544007453 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 572544007454 UbiA prenyltransferase family; Region: UbiA; pfam01040 572544007455 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 572544007456 BCCT family transporter; Region: BCCT; pfam02028 572544007457 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 572544007458 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 572544007459 Ferritin-like domain; Region: Ferritin; pfam00210 572544007460 diiron binding motif [ion binding]; other site 572544007461 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 572544007462 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 572544007463 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 572544007464 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 572544007465 non-heme iron binding site [ion binding]; other site 572544007466 dimer interface [polypeptide binding]; other site 572544007467 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 572544007468 non-heme iron binding site [ion binding]; other site 572544007469 dimer interface [polypeptide binding]; other site 572544007470 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 572544007471 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544007472 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 572544007473 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572544007474 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 572544007475 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 572544007476 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544007477 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544007478 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 572544007479 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544007480 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 572544007481 catalytic residues [active] 572544007482 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 572544007483 putative catalytic residues [active] 572544007484 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 572544007485 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 572544007486 motif II; other site 572544007487 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 572544007488 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572544007489 putative substrate translocation pore; other site 572544007490 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 572544007491 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 572544007492 catalytic residues [active] 572544007493 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 572544007494 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 572544007495 DsrE/DsrF-like family; Region: DrsE; cl00672 572544007496 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 572544007497 GSH binding site [chemical binding]; other site 572544007498 catalytic residues [active] 572544007499 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 572544007500 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572544007501 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544007502 Cysteine-rich small domain; Region: zf-like; cl00946 572544007503 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 572544007504 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 572544007505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544007506 Walker A/P-loop; other site 572544007507 ATP binding site [chemical binding]; other site 572544007508 ABC transporter signature motif; other site 572544007509 Walker B; other site 572544007510 D-loop; other site 572544007511 H-loop/switch region; other site 572544007512 ABC transporter; Region: ABC_tran_2; pfam12848 572544007513 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 572544007514 B12 binding domain; Region: B12-binding_2; pfam02607 572544007515 B12 binding domain; Region: B12-binding; pfam02310 572544007516 B12 binding site [chemical binding]; other site 572544007517 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544007518 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544007519 metal binding site [ion binding]; metal-binding site 572544007520 active site 572544007521 I-site; other site 572544007522 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 572544007523 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 572544007524 active site 572544007525 FMN binding site [chemical binding]; other site 572544007526 substrate binding site [chemical binding]; other site 572544007527 putative catalytic residue [active] 572544007528 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 572544007529 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 572544007530 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 572544007531 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 572544007532 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 572544007533 PYR/PP interface [polypeptide binding]; other site 572544007534 dimer interface [polypeptide binding]; other site 572544007535 TPP binding site [chemical binding]; other site 572544007536 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 572544007537 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 572544007538 TPP-binding site [chemical binding]; other site 572544007539 dimer interface [polypeptide binding]; other site 572544007540 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 572544007541 active site 572544007542 dihydroorotase; Provisional; Region: PRK07575 572544007543 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 572544007544 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 572544007545 active site 572544007546 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 572544007547 active site 572544007548 dimer interface [polypeptide binding]; other site 572544007549 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 572544007550 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 572544007551 heterodimer interface [polypeptide binding]; other site 572544007552 active site 572544007553 FMN binding site [chemical binding]; other site 572544007554 homodimer interface [polypeptide binding]; other site 572544007555 substrate binding site [chemical binding]; other site 572544007556 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 572544007557 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 572544007558 FAD binding pocket [chemical binding]; other site 572544007559 FAD binding motif [chemical binding]; other site 572544007560 phosphate binding motif [ion binding]; other site 572544007561 beta-alpha-beta structure motif; other site 572544007562 NAD binding pocket [chemical binding]; other site 572544007563 Iron coordination center [ion binding]; other site 572544007564 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 572544007565 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 572544007566 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 572544007567 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 572544007568 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 572544007569 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 572544007570 exonuclease I; Provisional; Region: sbcB; PRK11779 572544007571 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 572544007572 active site 572544007573 catalytic site [active] 572544007574 substrate binding site [chemical binding]; other site 572544007575 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 572544007576 glutamate racemase; Provisional; Region: PRK00865 572544007577 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 572544007578 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 572544007579 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 572544007580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544007581 active site 572544007582 phosphorylation site [posttranslational modification] 572544007583 intermolecular recognition site; other site 572544007584 dimerization interface [polypeptide binding]; other site 572544007585 LytTr DNA-binding domain; Region: LytTR; smart00850 572544007586 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 572544007587 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 572544007588 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 572544007589 Histidine kinase; Region: His_kinase; pfam06580 572544007590 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544007591 ATP binding site [chemical binding]; other site 572544007592 Mg2+ binding site [ion binding]; other site 572544007593 G-X-G motif; other site 572544007594 Uncharacterized conserved protein [Function unknown]; Region: COG2966 572544007595 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 572544007596 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 572544007597 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 572544007598 AAA domain; Region: AAA_21; pfam13304 572544007599 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 572544007600 putative active site [active] 572544007601 putative metal-binding site [ion binding]; other site 572544007602 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 572544007603 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 572544007604 NADP binding site [chemical binding]; other site 572544007605 dimer interface [polypeptide binding]; other site 572544007606 pyruvate carboxylase; Reviewed; Region: PRK12999 572544007607 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572544007608 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 572544007609 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 572544007610 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 572544007611 active site 572544007612 catalytic residues [active] 572544007613 metal binding site [ion binding]; metal-binding site 572544007614 homodimer binding site [polypeptide binding]; other site 572544007615 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 572544007616 carboxyltransferase (CT) interaction site; other site 572544007617 biotinylation site [posttranslational modification]; other site 572544007618 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 572544007619 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 572544007620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007621 homodimer interface [polypeptide binding]; other site 572544007622 catalytic residue [active] 572544007623 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 572544007624 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 572544007625 FeS/SAM binding site; other site 572544007626 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 572544007627 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 572544007628 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 572544007629 Coenzyme A binding pocket [chemical binding]; other site 572544007630 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 572544007631 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 572544007632 homodimer interface [polypeptide binding]; other site 572544007633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007634 catalytic residue [active] 572544007635 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 572544007636 Arginase family; Region: Arginase; cd09989 572544007637 active site 572544007638 Mn binding site [ion binding]; other site 572544007639 oligomer interface [polypeptide binding]; other site 572544007640 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 572544007641 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 572544007642 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544007643 dimer interface [polypeptide binding]; other site 572544007644 conserved gate region; other site 572544007645 putative PBP binding loops; other site 572544007646 ABC-ATPase subunit interface; other site 572544007647 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 572544007648 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 572544007649 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544007650 dimer interface [polypeptide binding]; other site 572544007651 conserved gate region; other site 572544007652 putative PBP binding loops; other site 572544007653 ABC-ATPase subunit interface; other site 572544007654 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 572544007655 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572544007656 Walker A/P-loop; other site 572544007657 ATP binding site [chemical binding]; other site 572544007658 Q-loop/lid; other site 572544007659 ABC transporter signature motif; other site 572544007660 Walker B; other site 572544007661 D-loop; other site 572544007662 H-loop/switch region; other site 572544007663 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 572544007664 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 572544007665 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 572544007666 Walker A/P-loop; other site 572544007667 ATP binding site [chemical binding]; other site 572544007668 Q-loop/lid; other site 572544007669 ABC transporter signature motif; other site 572544007670 Walker B; other site 572544007671 D-loop; other site 572544007672 H-loop/switch region; other site 572544007673 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 572544007674 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 572544007675 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 572544007676 peptide binding site [polypeptide binding]; other site 572544007677 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 572544007678 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 572544007679 transmembrane helices; other site 572544007680 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 572544007681 putative active site [active] 572544007682 transaldolase; Provisional; Region: PRK03903 572544007683 catalytic residue [active] 572544007684 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 572544007685 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 572544007686 putative lipid kinase; Reviewed; Region: PRK13059 572544007687 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 572544007688 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 572544007689 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 572544007690 active site 572544007691 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 572544007692 DNA polymerase III subunit beta; Validated; Region: PRK05643 572544007693 putative DNA binding surface [nucleotide binding]; other site 572544007694 dimer interface [polypeptide binding]; other site 572544007695 beta-clamp/clamp loader binding surface; other site 572544007696 beta-clamp/translesion DNA polymerase binding surface; other site 572544007697 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 572544007698 active site 572544007699 homodimer interface [polypeptide binding]; other site 572544007700 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 572544007701 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 572544007702 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544007703 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 572544007704 dimerization interface [polypeptide binding]; other site 572544007705 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 572544007706 dimer interface [polypeptide binding]; other site 572544007707 phosphorylation site [posttranslational modification] 572544007708 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544007709 ATP binding site [chemical binding]; other site 572544007710 Mg2+ binding site [ion binding]; other site 572544007711 G-X-G motif; other site 572544007712 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544007713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544007714 active site 572544007715 phosphorylation site [posttranslational modification] 572544007716 intermolecular recognition site; other site 572544007717 dimerization interface [polypeptide binding]; other site 572544007718 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 572544007719 DNA binding site [nucleotide binding] 572544007720 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572544007721 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 572544007722 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 572544007723 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 572544007724 SIR2-like domain; Region: SIR2_2; pfam13289 572544007725 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 572544007726 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 572544007727 Walker A motif; other site 572544007728 ATP binding site [chemical binding]; other site 572544007729 Walker B motif; other site 572544007730 arginine finger; other site 572544007731 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 572544007732 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 572544007733 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 572544007734 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 572544007735 putative active site [active] 572544007736 catalytic site [active] 572544007737 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 572544007738 putative active site [active] 572544007739 catalytic site [active] 572544007740 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 572544007741 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 572544007742 active site 572544007743 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 572544007744 active site 572544007745 catalytic triad [active] 572544007746 oxyanion hole [active] 572544007747 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 572544007748 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 572544007749 DNA binding residues [nucleotide binding] 572544007750 drug binding residues [chemical binding]; other site 572544007751 dimer interface [polypeptide binding]; other site 572544007752 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 572544007753 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 572544007754 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 572544007755 HlyD family secretion protein; Region: HlyD_3; pfam13437 572544007756 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 572544007757 Autotransporter beta-domain; Region: Autotransporter; smart00869 572544007758 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 572544007759 pyrroline-5-carboxylate reductase; Region: PLN02688 572544007760 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544007761 Zn2+ binding site [ion binding]; other site 572544007762 Mg2+ binding site [ion binding]; other site 572544007763 Chromate transporter; Region: Chromate_transp; pfam02417 572544007764 Chromate transporter; Region: Chromate_transp; pfam02417 572544007765 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 572544007766 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 572544007767 active site 572544007768 metal binding site [ion binding]; metal-binding site 572544007769 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 572544007770 S1 domain; Region: S1_2; pfam13509 572544007771 S1 domain; Region: S1_2; pfam13509 572544007772 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 572544007773 RNA binding site [nucleotide binding]; other site 572544007774 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 572544007775 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 572544007776 metal-binding site [ion binding] 572544007777 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 572544007778 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 572544007779 motif II; other site 572544007780 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 572544007781 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 572544007782 Conserved TM helix; Region: TM_helix; pfam05552 572544007783 Conserved TM helix; Region: TM_helix; pfam05552 572544007784 Conserved TM helix; Region: TM_helix; pfam05552 572544007785 mechanosensitive channel MscS; Provisional; Region: PRK10334 572544007786 Mechanosensitive ion channel; Region: MS_channel; pfam00924 572544007787 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 572544007788 Response regulator receiver domain; Region: Response_reg; pfam00072 572544007789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544007790 active site 572544007791 phosphorylation site [posttranslational modification] 572544007792 intermolecular recognition site; other site 572544007793 dimerization interface [polypeptide binding]; other site 572544007794 YcbB domain; Region: YcbB; pfam08664 572544007795 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544007796 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544007797 ATP binding site [chemical binding]; other site 572544007798 G-X-G motif; other site 572544007799 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 572544007800 DctM-like transporters; Region: DctM; pfam06808 572544007801 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 572544007802 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 572544007803 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 572544007804 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 572544007805 inhibitor-cofactor binding pocket; inhibition site 572544007806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007807 catalytic residue [active] 572544007808 L-aspartate oxidase; Provisional; Region: PRK06175 572544007809 FAD binding domain; Region: FAD_binding_2; pfam00890 572544007810 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 572544007811 catalytic loop [active] 572544007812 iron binding site [ion binding]; other site 572544007813 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 572544007814 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 572544007815 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 572544007816 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 572544007817 FAD binding pocket [chemical binding]; other site 572544007818 FAD binding motif [chemical binding]; other site 572544007819 phosphate binding motif [ion binding]; other site 572544007820 beta-alpha-beta structure motif; other site 572544007821 NAD binding pocket [chemical binding]; other site 572544007822 Iron coordination center [ion binding]; other site 572544007823 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 572544007824 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 572544007825 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 572544007826 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 572544007827 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 572544007828 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 572544007829 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 572544007830 4Fe-4S binding domain; Region: Fer4; pfam00037 572544007831 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 572544007832 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 572544007833 Cysteine-rich domain; Region: CCG; pfam02754 572544007834 Cysteine-rich domain; Region: CCG; pfam02754 572544007835 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 572544007836 Aspartase; Region: Aspartase; cd01357 572544007837 active sites [active] 572544007838 tetramer interface [polypeptide binding]; other site 572544007839 Transposase; Region: HTH_Tnp_1; cl17663 572544007840 putative transposase OrfB; Reviewed; Region: PHA02517 572544007841 HTH-like domain; Region: HTH_21; pfam13276 572544007842 Integrase core domain; Region: rve; pfam00665 572544007843 Integrase core domain; Region: rve_3; pfam13683 572544007844 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572544007845 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544007846 S-adenosylmethionine binding site [chemical binding]; other site 572544007847 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 572544007848 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 572544007849 active site residue [active] 572544007850 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 572544007851 active site residue [active] 572544007852 DPS-like protein, ferritin-like diiron-binding domain; Region: DPSL; cd01052 572544007853 Ferritin-like domain; Region: Ferritin; pfam00210 572544007854 diiron binding motif [ion binding]; other site 572544007855 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 572544007856 metal binding site 2 [ion binding]; metal-binding site 572544007857 putative DNA binding helix; other site 572544007858 structural Zn2+ binding site [ion binding]; other site 572544007859 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 572544007860 iron binding site [ion binding]; other site 572544007861 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 572544007862 Rubrerythrin [Energy production and conversion]; Region: COG1592 572544007863 diiron binding motif [ion binding]; other site 572544007864 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 572544007865 Na binding site [ion binding]; other site 572544007866 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 572544007867 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 572544007868 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 572544007869 Uncharacterized protein conserved in archaea (DUF2139); Region: DUF2139; cl01925 572544007870 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 572544007871 catalytic nucleophile [active] 572544007872 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 572544007873 selenocysteine synthase; Provisional; Region: PRK04311 572544007874 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 572544007875 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572544007876 catalytic residue [active] 572544007877 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 572544007878 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 572544007879 G1 box; other site 572544007880 putative GEF interaction site [polypeptide binding]; other site 572544007881 GTP/Mg2+ binding site [chemical binding]; other site 572544007882 Switch I region; other site 572544007883 G2 box; other site 572544007884 G3 box; other site 572544007885 Switch II region; other site 572544007886 G4 box; other site 572544007887 G5 box; other site 572544007888 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 572544007889 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 572544007890 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 572544007891 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 572544007892 ornithine carbamoyltransferase; Validated; Region: PRK02102 572544007893 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 572544007894 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 572544007895 acetylornithine aminotransferase; Provisional; Region: PRK02627 572544007896 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 572544007897 inhibitor-cofactor binding pocket; inhibition site 572544007898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007899 catalytic residue [active] 572544007900 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 572544007901 feedback inhibition sensing region; other site 572544007902 homohexameric interface [polypeptide binding]; other site 572544007903 nucleotide binding site [chemical binding]; other site 572544007904 N-acetyl-L-glutamate binding site [chemical binding]; other site 572544007905 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 572544007906 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572544007907 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 572544007908 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 572544007909 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 572544007910 ATP-grasp domain; Region: ATP-grasp_4; cl17255 572544007911 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 572544007912 substrate binding site [chemical binding]; other site 572544007913 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 572544007914 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 572544007915 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 572544007916 catalytic site [active] 572544007917 subunit interface [polypeptide binding]; other site 572544007918 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 572544007919 heterotetramer interface [polypeptide binding]; other site 572544007920 active site pocket [active] 572544007921 cleavage site 572544007922 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 572544007923 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 572544007924 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 572544007925 Cysteine-rich domain; Region: CCG; pfam02754 572544007926 Cysteine-rich domain; Region: CCG; pfam02754 572544007927 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 572544007928 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 572544007929 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 572544007930 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 572544007931 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 572544007932 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572544007933 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 572544007934 active site 572544007935 NAD binding site [chemical binding]; other site 572544007936 metal binding site [ion binding]; metal-binding site 572544007937 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 572544007938 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 572544007939 inhibitor-cofactor binding pocket; inhibition site 572544007940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544007941 catalytic residue [active] 572544007942 amino acid transporter; Region: 2A0306; TIGR00909 572544007943 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 572544007944 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 572544007945 Predicted permeases [General function prediction only]; Region: COG0679 572544007946 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 572544007947 tartrate dehydrogenase; Provisional; Region: PRK08194 572544007948 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 572544007949 EamA-like transporter family; Region: EamA; pfam00892 572544007950 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 572544007951 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 572544007952 putative active site [active] 572544007953 metal binding site [ion binding]; metal-binding site 572544007954 elongation factor P; Validated; Region: PRK00529 572544007955 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 572544007956 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 572544007957 RNA binding site [nucleotide binding]; other site 572544007958 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 572544007959 RNA binding site [nucleotide binding]; other site 572544007960 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 572544007961 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 572544007962 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 572544007963 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 572544007964 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 572544007965 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 572544007966 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 572544007967 Transcriptional regulators [Transcription]; Region: MarR; COG1846 572544007968 MarR family; Region: MarR_2; pfam12802 572544007969 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 572544007970 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544007971 Zn2+ binding site [ion binding]; other site 572544007972 Mg2+ binding site [ion binding]; other site 572544007973 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 572544007974 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 572544007975 motif II; other site 572544007976 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 572544007977 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 572544007978 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 572544007979 intersubunit interface [polypeptide binding]; other site 572544007980 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 572544007981 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 572544007982 Walker A/P-loop; other site 572544007983 ATP binding site [chemical binding]; other site 572544007984 Q-loop/lid; other site 572544007985 ABC transporter signature motif; other site 572544007986 Walker B; other site 572544007987 D-loop; other site 572544007988 H-loop/switch region; other site 572544007989 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 572544007990 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 572544007991 ABC-ATPase subunit interface; other site 572544007992 dimer interface [polypeptide binding]; other site 572544007993 putative PBP binding regions; other site 572544007994 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 572544007995 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 572544007996 active site 572544007997 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 572544007998 active site 572544007999 N-terminal domain interface [polypeptide binding]; other site 572544008000 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 572544008001 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 572544008002 active site 572544008003 C-terminal domain interface [polypeptide binding]; other site 572544008004 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 572544008005 active site 572544008006 N-terminal domain interface [polypeptide binding]; other site 572544008007 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 572544008008 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 572544008009 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 572544008010 Walker A/P-loop; other site 572544008011 ATP binding site [chemical binding]; other site 572544008012 Q-loop/lid; other site 572544008013 ABC transporter signature motif; other site 572544008014 Walker B; other site 572544008015 D-loop; other site 572544008016 H-loop/switch region; other site 572544008017 Uncharacterized conserved protein [Function unknown]; Region: COG1434 572544008018 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 572544008019 putative active site [active] 572544008020 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 572544008021 elongation factor G; Reviewed; Region: PRK12740 572544008022 G1 box; other site 572544008023 putative GEF interaction site [polypeptide binding]; other site 572544008024 GTP/Mg2+ binding site [chemical binding]; other site 572544008025 Switch I region; other site 572544008026 G2 box; other site 572544008027 G3 box; other site 572544008028 Switch II region; other site 572544008029 G4 box; other site 572544008030 G5 box; other site 572544008031 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 572544008032 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 572544008033 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 572544008034 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544008035 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544008036 metal binding site [ion binding]; metal-binding site 572544008037 active site 572544008038 I-site; other site 572544008039 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 572544008040 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 572544008041 IHF - DNA interface [nucleotide binding]; other site 572544008042 IHF dimer interface [polypeptide binding]; other site 572544008043 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 572544008044 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544008045 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572544008046 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 572544008047 active site residue [active] 572544008048 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 572544008049 Predicted permeases [General function prediction only]; Region: COG0701 572544008050 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 572544008051 dimerization interface [polypeptide binding]; other site 572544008052 putative DNA binding site [nucleotide binding]; other site 572544008053 putative Zn2+ binding site [ion binding]; other site 572544008054 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 572544008055 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 572544008056 putative dimer interface [polypeptide binding]; other site 572544008057 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 572544008058 AAA ATPase domain; Region: AAA_15; pfam13175 572544008059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544008060 Walker A/P-loop; other site 572544008061 ATP binding site [chemical binding]; other site 572544008062 Transposase; Region: HTH_Tnp_1; cl17663 572544008063 putative transposase OrfB; Reviewed; Region: PHA02517 572544008064 HTH-like domain; Region: HTH_21; pfam13276 572544008065 Integrase core domain; Region: rve; pfam00665 572544008066 Integrase core domain; Region: rve_3; pfam13683 572544008067 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 572544008068 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 572544008069 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 572544008070 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544008071 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572544008072 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 572544008073 active site residue [active] 572544008074 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 572544008075 CPxP motif; other site 572544008076 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 572544008077 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 572544008078 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 572544008079 putative active site [active] 572544008080 catalytic site [active] 572544008081 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 572544008082 PLD-like domain; Region: PLDc_2; pfam13091 572544008083 putative active site [active] 572544008084 putative catalytic site [active] 572544008085 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 572544008086 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 572544008087 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; cl17293 572544008088 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544008089 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544008090 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 572544008091 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 572544008092 putative NAD(P) binding site [chemical binding]; other site 572544008093 active site 572544008094 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 572544008095 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 572544008096 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 572544008097 tetramer interface [polypeptide binding]; other site 572544008098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544008099 catalytic residue [active] 572544008100 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 572544008101 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 572544008102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544008103 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572544008104 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 572544008105 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 572544008106 active site residue [active] 572544008107 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 572544008108 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 572544008109 active site residue [active] 572544008110 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 572544008111 active site residue [active] 572544008112 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 572544008113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544008114 Walker A/P-loop; other site 572544008115 ATP binding site [chemical binding]; other site 572544008116 Q-loop/lid; other site 572544008117 ABC transporter signature motif; other site 572544008118 Walker B; other site 572544008119 D-loop; other site 572544008120 H-loop/switch region; other site 572544008121 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 572544008122 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544008123 dimer interface [polypeptide binding]; other site 572544008124 conserved gate region; other site 572544008125 putative PBP binding loops; other site 572544008126 ABC-ATPase subunit interface; other site 572544008127 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 572544008128 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 572544008129 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 572544008130 putative kinase; Provisional; Region: PRK09954 572544008131 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 572544008132 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 572544008133 substrate binding site [chemical binding]; other site 572544008134 ATP binding site [chemical binding]; other site 572544008135 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 572544008136 aminotransferase A; Validated; Region: PRK07683 572544008137 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 572544008138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544008139 homodimer interface [polypeptide binding]; other site 572544008140 catalytic residue [active] 572544008141 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 572544008142 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 572544008143 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 572544008144 trimer interface [polypeptide binding]; other site 572544008145 active site 572544008146 substrate binding site [chemical binding]; other site 572544008147 CoA binding site [chemical binding]; other site 572544008148 dihydrodipicolinate reductase; Provisional; Region: PRK00048 572544008149 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 572544008150 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 572544008151 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 572544008152 dihydrodipicolinate synthase; Region: dapA; TIGR00674 572544008153 dimer interface [polypeptide binding]; other site 572544008154 active site 572544008155 catalytic residue [active] 572544008156 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 572544008157 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 572544008158 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 572544008159 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 572544008160 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 572544008161 aspartate kinase; Reviewed; Region: PRK06635 572544008162 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 572544008163 putative nucleotide binding site [chemical binding]; other site 572544008164 putative catalytic residues [active] 572544008165 putative Mg ion binding site [ion binding]; other site 572544008166 putative aspartate binding site [chemical binding]; other site 572544008167 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 572544008168 putative allosteric regulatory site; other site 572544008169 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 572544008170 diaminopimelate decarboxylase; Region: lysA; TIGR01048 572544008171 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 572544008172 active site 572544008173 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 572544008174 substrate binding site [chemical binding]; other site 572544008175 catalytic residues [active] 572544008176 dimer interface [polypeptide binding]; other site 572544008177 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 572544008178 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 572544008179 metal binding site [ion binding]; metal-binding site 572544008180 dimer interface [polypeptide binding]; other site 572544008181 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 572544008182 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 572544008183 active site 572544008184 nucleophile elbow; other site 572544008185 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 572544008186 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 572544008187 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572544008188 catalytic residue [active] 572544008189 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 572544008190 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 572544008191 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 572544008192 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 572544008193 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cl00323 572544008194 Tetramer interface [polypeptide binding]; other site 572544008195 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544008196 S-adenosylmethionine binding site [chemical binding]; other site 572544008197 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544008198 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 572544008199 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 572544008200 metal-binding site 572544008201 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544008202 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 572544008203 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 572544008204 active site 572544008205 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 572544008206 stage V sporulation protein B; Region: spore_V_B; TIGR02900 572544008207 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 572544008208 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 572544008209 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 572544008210 NADP binding site [chemical binding]; other site 572544008211 active site 572544008212 putative substrate binding site [chemical binding]; other site 572544008213 conserved hypothetical protein; Region: MJ1255; TIGR00661 572544008214 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 572544008215 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 572544008216 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 572544008217 NADP-binding site; other site 572544008218 homotetramer interface [polypeptide binding]; other site 572544008219 substrate binding site [chemical binding]; other site 572544008220 homodimer interface [polypeptide binding]; other site 572544008221 active site 572544008222 Bacterial sugar transferase; Region: Bac_transf; pfam02397 572544008223 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 572544008224 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 572544008225 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 572544008226 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 572544008227 Predicted integral membrane protein [Function unknown]; Region: COG0392 572544008228 Uncharacterized conserved protein [Function unknown]; Region: COG2898 572544008229 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 572544008230 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 572544008231 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 572544008232 dimer interface [polypeptide binding]; other site 572544008233 motif 1; other site 572544008234 active site 572544008235 motif 2; other site 572544008236 motif 3; other site 572544008237 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 572544008238 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 572544008239 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 572544008240 histidinol dehydrogenase; Region: hisD; TIGR00069 572544008241 NAD binding site [chemical binding]; other site 572544008242 dimerization interface [polypeptide binding]; other site 572544008243 product binding site; other site 572544008244 substrate binding site [chemical binding]; other site 572544008245 zinc binding site [ion binding]; other site 572544008246 catalytic residues [active] 572544008247 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 572544008248 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 572544008249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544008250 homodimer interface [polypeptide binding]; other site 572544008251 catalytic residue [active] 572544008252 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 572544008253 putative active site pocket [active] 572544008254 4-fold oligomerization interface [polypeptide binding]; other site 572544008255 metal binding residues [ion binding]; metal-binding site 572544008256 3-fold/trimer interface [polypeptide binding]; other site 572544008257 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 572544008258 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 572544008259 putative active site [active] 572544008260 oxyanion strand; other site 572544008261 catalytic triad [active] 572544008262 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 572544008263 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 572544008264 catalytic residues [active] 572544008265 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 572544008266 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 572544008267 substrate binding site [chemical binding]; other site 572544008268 glutamase interaction surface [polypeptide binding]; other site 572544008269 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 572544008270 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 572544008271 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 572544008272 metal binding site [ion binding]; metal-binding site 572544008273 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 572544008274 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 572544008275 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544008276 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 572544008277 ligand binding site [chemical binding]; other site 572544008278 flexible hinge region; other site 572544008279 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 572544008280 DctM-like transporters; Region: DctM; pfam06808 572544008281 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 572544008282 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 572544008283 membrane-bound complex binding site; other site 572544008284 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 572544008285 DctM-like transporters; Region: DctM; pfam06808 572544008286 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 572544008287 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 572544008288 membrane-bound complex binding site; other site 572544008289 two-component response regulator; Provisional; Region: PRK14084 572544008290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544008291 active site 572544008292 phosphorylation site [posttranslational modification] 572544008293 intermolecular recognition site; other site 572544008294 dimerization interface [polypeptide binding]; other site 572544008295 LytTr DNA-binding domain; Region: LytTR; smart00850 572544008296 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544008297 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 572544008298 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 572544008299 dimer interface [polypeptide binding]; other site 572544008300 PYR/PP interface [polypeptide binding]; other site 572544008301 TPP binding site [chemical binding]; other site 572544008302 substrate binding site [chemical binding]; other site 572544008303 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 572544008304 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 572544008305 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 572544008306 TPP-binding site [chemical binding]; other site 572544008307 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 572544008308 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 572544008309 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 572544008310 GAF domain; Region: GAF_3; pfam13492 572544008311 Histidine kinase; Region: His_kinase; pfam06580 572544008312 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544008313 ATP binding site [chemical binding]; other site 572544008314 Mg2+ binding site [ion binding]; other site 572544008315 G-X-G motif; other site 572544008316 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 572544008317 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544008318 S-adenosylmethionine binding site [chemical binding]; other site 572544008319 biotin synthase; Region: bioB; TIGR00433 572544008320 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 572544008321 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 572544008322 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 572544008323 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06549 572544008324 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 572544008325 carboxyltransferase (CT) interaction site; other site 572544008326 biotinylation site [posttranslational modification]; other site 572544008327 sodium pump decarboxylases, gamma subunit; Region: oadG_fam; TIGR01195 572544008328 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 572544008329 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 572544008330 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 572544008331 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; cl17835 572544008332 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 572544008333 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 572544008334 dimer interface [polypeptide binding]; other site 572544008335 substrate binding site [chemical binding]; other site 572544008336 metal binding site [ion binding]; metal-binding site 572544008337 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 572544008338 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 572544008339 Walker A; other site 572544008340 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 572544008341 B12 binding site [chemical binding]; other site 572544008342 cobalt ligand [ion binding]; other site 572544008343 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 572544008344 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 572544008345 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 572544008346 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 572544008347 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 572544008348 Domain of unknown function (DUF3870); Region: DUF3870; pfam12986 572544008349 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 572544008350 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 572544008351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 572544008352 Walker A/P-loop; other site 572544008353 ATP binding site [chemical binding]; other site 572544008354 Q-loop/lid; other site 572544008355 ABC transporter signature motif; other site 572544008356 Walker B; other site 572544008357 D-loop; other site 572544008358 H-loop/switch region; other site 572544008359 Predicted transcriptional regulators [Transcription]; Region: COG1733 572544008360 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 572544008361 ATP cone domain; Region: ATP-cone; pfam03477 572544008362 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 572544008363 Class III ribonucleotide reductase; Region: RNR_III; cd01675 572544008364 effector binding site; other site 572544008365 active site 572544008366 Zn binding site [ion binding]; other site 572544008367 glycine loop; other site 572544008368 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 572544008369 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 572544008370 FeS/SAM binding site; other site 572544008371 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 572544008372 putative ADP-ribose binding site [chemical binding]; other site 572544008373 putative active site [active] 572544008374 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 572544008375 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 572544008376 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 572544008377 non-specific DNA binding site [nucleotide binding]; other site 572544008378 salt bridge; other site 572544008379 sequence-specific DNA binding site [nucleotide binding]; other site 572544008380 Cupin domain; Region: Cupin_2; pfam07883 572544008381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 572544008382 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 572544008383 NAD(P) binding site [chemical binding]; other site 572544008384 active site 572544008385 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; cl17526 572544008386 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572544008387 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 572544008388 putative active site [active] 572544008389 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 572544008390 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 572544008391 NAD binding site [chemical binding]; other site 572544008392 substrate binding site [chemical binding]; other site 572544008393 homodimer interface [polypeptide binding]; other site 572544008394 active site 572544008395 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 572544008396 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 572544008397 substrate binding site; other site 572544008398 tetramer interface; other site 572544008399 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 572544008400 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 572544008401 inhibitor-cofactor binding pocket; inhibition site 572544008402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 572544008403 catalytic residue [active] 572544008404 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 572544008405 putative trimer interface [polypeptide binding]; other site 572544008406 putative CoA binding site [chemical binding]; other site 572544008407 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 572544008408 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 572544008409 active site 572544008410 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 572544008411 active site 572544008412 Transposase; Region: HTH_Tnp_1; cl17663 572544008413 putative transposase OrfB; Reviewed; Region: PHA02517 572544008414 HTH-like domain; Region: HTH_21; pfam13276 572544008415 Integrase core domain; Region: rve; pfam00665 572544008416 Integrase core domain; Region: rve_3; pfam13683 572544008417 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 572544008418 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 572544008419 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 572544008420 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 572544008421 putative active site [active] 572544008422 serine/threonine protein kinase; Provisional; Region: PRK14879 572544008423 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 572544008424 synthetase active site [active] 572544008425 NTP binding site [chemical binding]; other site 572544008426 metal binding site [ion binding]; metal-binding site 572544008427 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 572544008428 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 572544008429 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 572544008430 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 572544008431 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 572544008432 Walker A/P-loop; other site 572544008433 ATP binding site [chemical binding]; other site 572544008434 Q-loop/lid; other site 572544008435 ABC transporter signature motif; other site 572544008436 Walker B; other site 572544008437 D-loop; other site 572544008438 H-loop/switch region; other site 572544008439 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 572544008440 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544008441 dimer interface [polypeptide binding]; other site 572544008442 conserved gate region; other site 572544008443 putative PBP binding loops; other site 572544008444 ABC-ATPase subunit interface; other site 572544008445 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 572544008446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544008447 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544008448 putative PBP binding loops; other site 572544008449 ABC-ATPase subunit interface; other site 572544008450 hypothetical protein; Provisional; Region: PRK11622 572544008451 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 572544008452 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 572544008453 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 572544008454 active site residue [active] 572544008455 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 572544008456 active site residue [active] 572544008457 Uncharacterized conserved protein [Function unknown]; Region: COG0398 572544008458 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 572544008459 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 572544008460 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 572544008461 Cysteine-rich domain; Region: CCG; pfam02754 572544008462 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 572544008463 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 572544008464 active site residue [active] 572544008465 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 572544008466 active site residue [active] 572544008467 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 572544008468 active site residue [active] 572544008469 Uncharacterized conserved protein [Function unknown]; Region: COG0398 572544008470 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 572544008471 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 572544008472 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 572544008473 active site 572544008474 purine riboside binding site [chemical binding]; other site 572544008475 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 572544008476 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 572544008477 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 572544008478 NAD binding site [chemical binding]; other site 572544008479 homodimer interface [polypeptide binding]; other site 572544008480 active site 572544008481 substrate binding site [chemical binding]; other site 572544008482 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 572544008483 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 572544008484 HflX GTPase family; Region: HflX; cd01878 572544008485 G1 box; other site 572544008486 GTP/Mg2+ binding site [chemical binding]; other site 572544008487 Switch I region; other site 572544008488 G2 box; other site 572544008489 G3 box; other site 572544008490 Switch II region; other site 572544008491 G4 box; other site 572544008492 G5 box; other site 572544008493 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 572544008494 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 572544008495 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 572544008496 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 572544008497 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 572544008498 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 572544008499 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 572544008500 active site 572544008501 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 572544008502 Clp amino terminal domain; Region: Clp_N; pfam02861 572544008503 Clp amino terminal domain; Region: Clp_N; pfam02861 572544008504 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 572544008505 Walker A motif; other site 572544008506 ATP binding site [chemical binding]; other site 572544008507 Walker B motif; other site 572544008508 arginine finger; other site 572544008509 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 572544008510 Walker A motif; other site 572544008511 ATP binding site [chemical binding]; other site 572544008512 Walker B motif; other site 572544008513 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 572544008514 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 572544008515 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 572544008516 ligand binding site [chemical binding]; other site 572544008517 Nickel-containing superoxide dismutase; Region: Sod_Ni; cl07609 572544008518 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 572544008519 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 572544008520 putative active site [active] 572544008521 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 572544008522 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 572544008523 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 572544008524 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 572544008525 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 572544008526 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 572544008527 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 572544008528 active site 572544008529 motif I; other site 572544008530 motif II; other site 572544008531 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 572544008532 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 572544008533 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 572544008534 Ligand Binding Site [chemical binding]; other site 572544008535 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 572544008536 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 572544008537 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 572544008538 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 572544008539 catalytic residue [active] 572544008540 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 572544008541 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 572544008542 Family description; Region: UvrD_C_2; pfam13538 572544008543 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 572544008544 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 572544008545 Catalytic site [active] 572544008546 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cl02206 572544008547 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 572544008548 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 572544008549 active site 572544008550 dimer interfaces [polypeptide binding]; other site 572544008551 catalytic residues [active] 572544008552 Protein of unknown function DUF45; Region: DUF45; pfam01863 572544008553 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 572544008554 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 572544008555 active site 572544008556 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 572544008557 putative active site [active] 572544008558 dimerization interface [polypeptide binding]; other site 572544008559 putative tRNAtyr binding site [nucleotide binding]; other site 572544008560 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 572544008561 IHF - DNA interface [nucleotide binding]; other site 572544008562 IHF dimer interface [polypeptide binding]; other site 572544008563 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 572544008564 Citrate synthase; Region: Citrate_synt; pfam00285 572544008565 oxalacetate binding site [chemical binding]; other site 572544008566 citrylCoA binding site [chemical binding]; other site 572544008567 coenzyme A binding site [chemical binding]; other site 572544008568 catalytic triad [active] 572544008569 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 572544008570 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 572544008571 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 572544008572 P-loop; other site 572544008573 Magnesium ion binding site [ion binding]; other site 572544008574 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 572544008575 Magnesium ion binding site [ion binding]; other site 572544008576 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572544008577 active site 572544008578 NTP binding site [chemical binding]; other site 572544008579 metal binding triad [ion binding]; metal-binding site 572544008580 antibiotic binding site [chemical binding]; other site 572544008581 Protein of unknown function DUF86; Region: DUF86; cl01031 572544008582 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 572544008583 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 572544008584 nucleotidyl binding site; other site 572544008585 metal binding site [ion binding]; metal-binding site 572544008586 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 572544008587 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 572544008588 dimerization interface [polypeptide binding]; other site 572544008589 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 572544008590 Zn2+ binding site [ion binding]; other site 572544008591 Mg2+ binding site [ion binding]; other site 572544008592 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544008593 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572544008594 S-adenosylmethionine binding site [chemical binding]; other site 572544008595 Rubredoxin [Energy production and conversion]; Region: COG1773 572544008596 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 572544008597 iron binding site [ion binding]; other site 572544008598 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 572544008599 Rubredoxin; Region: Rubredoxin; pfam00301 572544008600 iron binding site [ion binding]; other site 572544008601 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 572544008602 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544008603 hybrid cluster protein; Provisional; Region: PRK05290 572544008604 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 572544008605 ACS interaction site; other site 572544008606 CODH interaction site; other site 572544008607 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 572544008608 ACS interaction site; other site 572544008609 CODH interaction site; other site 572544008610 metal cluster binding site [ion binding]; other site 572544008611 Rubredoxin [Energy production and conversion]; Region: COG1773 572544008612 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 572544008613 iron binding site [ion binding]; other site 572544008614 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 572544008615 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 572544008616 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 572544008617 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 572544008618 Short C-terminal domain; Region: SHOCT; pfam09851 572544008619 multicopper oxidase; Provisional; Region: PRK10965 572544008620 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 572544008621 Multicopper oxidase; Region: Cu-oxidase; pfam00394 572544008622 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 572544008623 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 572544008624 Uncharacterized conserved protein [Function unknown]; Region: COG2128 572544008625 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 572544008626 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 572544008627 metal-binding site [ion binding] 572544008628 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 572544008629 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 572544008630 Multicopper oxidase; Region: Cu-oxidase; pfam00394 572544008631 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 572544008632 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 572544008633 dimer interface [polypeptide binding]; other site 572544008634 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 572544008635 dimer interface [polypeptide binding]; other site 572544008636 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 572544008637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 572544008638 active site 572544008639 phosphorylation site [posttranslational modification] 572544008640 intermolecular recognition site; other site 572544008641 dimerization interface [polypeptide binding]; other site 572544008642 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 572544008643 DNA binding site [nucleotide binding] 572544008644 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 572544008645 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 572544008646 dimerization interface [polypeptide binding]; other site 572544008647 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 572544008648 dimer interface [polypeptide binding]; other site 572544008649 phosphorylation site [posttranslational modification] 572544008650 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 572544008651 ATP binding site [chemical binding]; other site 572544008652 Mg2+ binding site [ion binding]; other site 572544008653 G-X-G motif; other site 572544008654 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 572544008655 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 572544008656 Walker A/P-loop; other site 572544008657 ATP binding site [chemical binding]; other site 572544008658 Q-loop/lid; other site 572544008659 ABC transporter signature motif; other site 572544008660 Walker B; other site 572544008661 D-loop; other site 572544008662 H-loop/switch region; other site 572544008663 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 572544008664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544008665 dimer interface [polypeptide binding]; other site 572544008666 conserved gate region; other site 572544008667 putative PBP binding loops; other site 572544008668 ABC-ATPase subunit interface; other site 572544008669 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (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 572544008670 dimer interface [polypeptide binding]; other site 572544008671 conserved gate region; other site 572544008672 putative PBP binding loops; other site 572544008673 ABC-ATPase subunit interface; other site 572544008674 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 572544008675 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 572544008676 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 572544008677 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 572544008678 transmembrane helices; other site 572544008679 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 572544008680 ligand-binding site [chemical binding]; other site 572544008681 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 572544008682 L-aspartate oxidase; Provisional; Region: PRK06175 572544008683 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 572544008684 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 572544008685 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 572544008686 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 572544008687 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 572544008688 Active Sites [active] 572544008689 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 572544008690 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 572544008691 CysD dimerization site [polypeptide binding]; other site 572544008692 G1 box; other site 572544008693 putative GEF interaction site [polypeptide binding]; other site 572544008694 GTP/Mg2+ binding site [chemical binding]; other site 572544008695 Switch I region; other site 572544008696 G2 box; other site 572544008697 G3 box; other site 572544008698 Switch II region; other site 572544008699 G4 box; other site 572544008700 G5 box; other site 572544008701 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 572544008702 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 572544008703 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 572544008704 active site 572544008705 FMN-binding domain; Region: FMN_bind; cl01081 572544008706 FMN-binding domain; Region: FMN_bind; cl01081 572544008707 Methyltransferase domain; Region: Methyltransf_31; pfam13847 572544008708 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 572544008709 S-adenosylmethionine binding site [chemical binding]; other site 572544008710 multiple promoter invertase; Provisional; Region: mpi; PRK13413 572544008711 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 572544008712 catalytic residues [active] 572544008713 catalytic nucleophile [active] 572544008714 Presynaptic Site I dimer interface [polypeptide binding]; other site 572544008715 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 572544008716 Synaptic Flat tetramer interface [polypeptide binding]; other site 572544008717 Synaptic Site I dimer interface [polypeptide binding]; other site 572544008718 DNA binding site [nucleotide binding] 572544008719 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 572544008720 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 572544008721 metal binding site [ion binding]; metal-binding site 572544008722 active site 572544008723 I-site; other site 572544008724 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 572544008725 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 572544008726 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 572544008727 ATP binding site [chemical binding]; other site 572544008728 putative Mg++ binding site [ion binding]; other site 572544008729 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 572544008730 Protein of unknown function DUF86; Region: DUF86; cl01031 572544008731 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 572544008732 HsdM N-terminal domain; Region: HsdM_N; pfam12161 572544008733 Methyltransferase domain; Region: Methyltransf_26; pfam13659 572544008734 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572544008735 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 572544008736 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 572544008737 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 572544008738 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544008739 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 572544008740 active site 572544008741 Domain of unknown function (DUF377); Region: DUF377; pfam04041 572544008742 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 572544008743 active site 572544008744 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 572544008745 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 572544008746 putative ADP-binding pocket [chemical binding]; other site 572544008747 Transposase, Mutator family; Region: Transposase_mut; pfam00872 572544008748 MULE transposase domain; Region: MULE; pfam10551 572544008749 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 572544008750 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 572544008751 catalytic residues [active] 572544008752 catalytic nucleophile [active] 572544008753 Presynaptic Site I dimer interface [polypeptide binding]; other site 572544008754 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 572544008755 Synaptic Flat tetramer interface [polypeptide binding]; other site 572544008756 Synaptic Site I dimer interface [polypeptide binding]; other site 572544008757 DNA binding site [nucleotide binding] 572544008758 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 572544008759 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572544008760 active site 572544008761 NTP binding site [chemical binding]; other site 572544008762 metal binding triad [ion binding]; metal-binding site 572544008763 antibiotic binding site [chemical binding]; other site 572544008764 Protein of unknown function DUF86; Region: DUF86; pfam01934 572544008765 Protein of unknown function DUF86; Region: DUF86; cl01031 572544008766 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 572544008767 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 572544008768 MobA/MobL family; Region: MobA_MobL; pfam03389 572544008769 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572544008770 active site 572544008771 NTP binding site [chemical binding]; other site 572544008772 metal binding triad [ion binding]; metal-binding site 572544008773 antibiotic binding site [chemical binding]; other site 572544008774 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 572544008775 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 572544008776 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 572544008777 non-specific DNA binding site [nucleotide binding]; other site 572544008778 salt bridge; other site 572544008779 sequence-specific DNA binding site [nucleotide binding]; other site 572544008780 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 572544008781 Catalytic site [active] 572544008782 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 572544008783 VirB8 protein; Region: VirB8; cl01500 572544008784 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 572544008785 VirB7 interaction site; other site 572544008786 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 572544008787 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 572544008788 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 572544008789 Walker A motif; other site 572544008790 ATP binding site [chemical binding]; other site 572544008791 Walker B motif; other site 572544008792 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 572544008793 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 572544008794 ATP binding site [chemical binding]; other site 572544008795 Walker A motif; other site 572544008796 hexamer interface [polypeptide binding]; other site 572544008797 Walker B motif; other site 572544008798 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 572544008799 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 572544008800 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 572544008801 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 572544008802 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 572544008803 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 572544008804 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 572544008805 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 572544008806 DNA topoisomerase III; Provisional; Region: PRK07726 572544008807 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 572544008808 active site 572544008809 putative interdomain interaction site [polypeptide binding]; other site 572544008810 putative metal-binding site [ion binding]; other site 572544008811 putative nucleotide binding site [chemical binding]; other site 572544008812 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; cl11986 572544008813 domain I; other site 572544008814 DNA binding groove [nucleotide binding] 572544008815 phosphate binding site [ion binding]; other site 572544008816 domain II; other site 572544008817 domain III; other site 572544008818 nucleotide binding site [chemical binding]; other site 572544008819 catalytic site [active] 572544008820 domain IV; other site 572544008821 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 572544008822 Fic family protein [Function unknown]; Region: COG3177 572544008823 Fic/DOC family; Region: Fic; pfam02661 572544008824 Fic family protein [Function unknown]; Region: COG3177 572544008825 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 572544008826 Fic/DOC family; Region: Fic; pfam02661 572544008827 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 572544008828 AAA domain; Region: AAA_14; pfam13173 572544008829 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 572544008830 Resolvase, N terminal domain; Region: Resolvase; pfam00239 572544008831 catalytic residues [active] 572544008832 catalytic nucleophile [active] 572544008833 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 572544008834 active site 572544008835 NTP binding site [chemical binding]; other site 572544008836 metal binding triad [ion binding]; metal-binding site 572544008837 antibiotic binding site [chemical binding]; other site 572544008838 HEPN domain; Region: HEPN; pfam05168 572544008839 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 572544008840 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 572544008841 substrate binding site [chemical binding]; other site 572544008842 oxyanion hole (OAH) forming residues; other site 572544008843 trimer interface [polypeptide binding]; other site 572544008844 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 572544008845 MarR family; Region: MarR_2; pfam12802 572544008846 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 572544008847 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 572544008848 NADP binding site [chemical binding]; other site 572544008849 dimer interface [polypeptide binding]; other site 572544008850 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 572544008851 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 572544008852 active site 572544008853 FMN binding site [chemical binding]; other site 572544008854 substrate binding site [chemical binding]; other site 572544008855 putative catalytic residue [active] 572544008856 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 572544008857 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 572544008858 putative active site [active] 572544008859 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 572544008860 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 572544008861 NADP binding site [chemical binding]; other site 572544008862 homodimer interface [polypeptide binding]; other site 572544008863 active site 572544008864 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 572544008865 FAD binding domain; Region: FAD_binding_4; pfam01565 572544008866 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 572544008867 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 572544008868 nucleotide binding site [chemical binding]; other site 572544008869 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 572544008870 Major Facilitator Superfamily; Region: MFS_1; pfam07690 572544008871 putative substrate translocation pore; other site 572544008872 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 572544008873 Ligand binding site [chemical binding]; other site 572544008874 Electron transfer flavoprotein domain; Region: ETF; pfam01012 572544008875 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 572544008876 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 572544008877 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 572544008878 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 572544008879 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 572544008880 NADP binding site [chemical binding]; other site 572544008881 homodimer interface [polypeptide binding]; other site 572544008882 active site 572544008883 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 572544008884 DctM-like transporters; Region: DctM; pfam06808 572544008885 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 572544008886 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 572544008887 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 572544008888 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 572544008889 Transcriptional regulators [Transcription]; Region: GntR; COG1802 572544008890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 572544008891 DNA-binding site [nucleotide binding]; DNA binding site 572544008892 FCD domain; Region: FCD; pfam07729 572544008893 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 572544008894 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 572544008895 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 572544008896 multiple promoter invertase; Provisional; Region: mpi; PRK13413 572544008897 catalytic residues [active] 572544008898 catalytic nucleophile [active] 572544008899 Presynaptic Site I dimer interface [polypeptide binding]; other site 572544008900 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 572544008901 Synaptic Flat tetramer interface [polypeptide binding]; other site 572544008902 Synaptic Site I dimer interface [polypeptide binding]; other site 572544008903 DNA binding site [nucleotide binding] 572544008904 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 572544008905 TPR motif; other site 572544008906 TPR repeat; Region: TPR_11; pfam13414 572544008907 binding surface