-- dump date 20140620_032711 -- class Genbank::misc_feature -- table misc_feature_note -- id note 652103000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 652103000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 652103000003 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 652103000004 Walker A motif; other site 652103000005 ATP binding site [chemical binding]; other site 652103000006 Walker B motif; other site 652103000007 arginine finger; other site 652103000008 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 652103000009 DnaA box-binding interface [nucleotide binding]; other site 652103000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 652103000011 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 652103000012 putative DNA binding surface [nucleotide binding]; other site 652103000013 dimer interface [polypeptide binding]; other site 652103000014 beta-clamp/clamp loader binding surface; other site 652103000015 beta-clamp/translesion DNA polymerase binding surface; other site 652103000016 recombination protein F; Reviewed; Region: recF; PRK00064 652103000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103000018 Walker A/P-loop; other site 652103000019 ATP binding site [chemical binding]; other site 652103000020 Q-loop/lid; other site 652103000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103000022 ABC transporter signature motif; other site 652103000023 Walker B; other site 652103000024 D-loop; other site 652103000025 H-loop/switch region; other site 652103000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 652103000027 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 652103000028 Mg2+ binding site [ion binding]; other site 652103000029 G-X-G motif; other site 652103000030 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 652103000031 anchoring element; other site 652103000032 dimer interface [polypeptide binding]; other site 652103000033 ATP binding site [chemical binding]; other site 652103000034 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 652103000035 active site 652103000036 putative metal-binding site [ion binding]; other site 652103000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 652103000038 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 652103000039 dimerization interface [polypeptide binding]; other site 652103000040 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103000041 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103000042 dimer interface [polypeptide binding]; other site 652103000043 putative CheW interface [polypeptide binding]; other site 652103000044 PAS domain; Region: PAS; smart00091 652103000045 PAS domain; Region: PAS_9; pfam13426 652103000046 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103000047 HWE histidine kinase; Region: HWE_HK; pfam07536 652103000048 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 652103000049 tetramer interface [polypeptide binding]; other site 652103000050 dimer interface [polypeptide binding]; other site 652103000051 circadian clock protein KaiC; Reviewed; Region: PRK09302 652103000052 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 652103000053 Walker A motif; other site 652103000054 ATP binding site [chemical binding]; other site 652103000055 Walker B motif; other site 652103000056 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 652103000057 Walker A motif; other site 652103000058 ATP binding site [chemical binding]; other site 652103000059 Walker B motif; other site 652103000060 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 652103000061 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103000062 putative CheW interface [polypeptide binding]; other site 652103000063 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 652103000064 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 652103000065 putative DNA binding site [nucleotide binding]; other site 652103000066 putative Zn2+ binding site [ion binding]; other site 652103000067 AsnC family; Region: AsnC_trans_reg; pfam01037 652103000068 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 652103000069 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 652103000070 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 652103000071 metal-binding site [ion binding] 652103000072 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103000073 Soluble P-type ATPase [General function prediction only]; Region: COG4087 652103000074 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 652103000075 FixH; Region: FixH; pfam05751 652103000076 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 652103000077 4Fe-4S binding domain; Region: Fer4_5; pfam12801 652103000078 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 652103000079 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 652103000080 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 652103000081 Cytochrome c; Region: Cytochrom_C; pfam00034 652103000082 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 652103000083 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 652103000084 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 652103000085 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 652103000086 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 652103000087 Low-spin heme binding site [chemical binding]; other site 652103000088 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 652103000089 Putative water exit pathway; other site 652103000090 Binuclear center (active site) [active] 652103000091 Putative proton exit pathway; other site 652103000092 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 652103000093 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 652103000094 putative NAD(P) binding site [chemical binding]; other site 652103000095 active site 652103000096 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 652103000097 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 652103000098 putative catalytic residue [active] 652103000099 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103000100 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 652103000101 putative C-terminal domain interface [polypeptide binding]; other site 652103000102 putative GSH binding site (G-site) [chemical binding]; other site 652103000103 putative dimer interface [polypeptide binding]; other site 652103000104 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 652103000105 putative N-terminal domain interface [polypeptide binding]; other site 652103000106 putative dimer interface [polypeptide binding]; other site 652103000107 putative substrate binding pocket (H-site) [chemical binding]; other site 652103000108 short chain dehydrogenase; Provisional; Region: PRK08278 652103000109 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 652103000110 NAD(P) binding site [chemical binding]; other site 652103000111 homodimer interface [polypeptide binding]; other site 652103000112 active site 652103000113 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 652103000114 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 652103000115 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 652103000116 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103000117 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 652103000118 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 652103000119 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 652103000120 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 652103000121 purine monophosphate binding site [chemical binding]; other site 652103000122 dimer interface [polypeptide binding]; other site 652103000123 putative catalytic residues [active] 652103000124 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 652103000125 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 652103000126 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 652103000127 NusB family; Region: NusB; pfam01029 652103000128 putative RNA binding site [nucleotide binding]; other site 652103000129 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 652103000130 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 652103000131 S-adenosylmethionine binding site [chemical binding]; other site 652103000132 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 652103000133 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 652103000134 Catalytic site; other site 652103000135 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103000136 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 652103000137 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 652103000138 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 652103000139 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 652103000140 putative tRNA-binding site [nucleotide binding]; other site 652103000141 B3/4 domain; Region: B3_4; pfam03483 652103000142 tRNA synthetase B5 domain; Region: B5; smart00874 652103000143 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 652103000144 dimer interface [polypeptide binding]; other site 652103000145 motif 1; other site 652103000146 motif 3; other site 652103000147 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 652103000148 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 652103000149 putative active site [active] 652103000150 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 652103000151 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 652103000152 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 652103000153 dimer interface [polypeptide binding]; other site 652103000154 motif 1; other site 652103000155 active site 652103000156 motif 2; other site 652103000157 motif 3; other site 652103000158 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 652103000159 23S rRNA binding site [nucleotide binding]; other site 652103000160 L21 binding site [polypeptide binding]; other site 652103000161 L13 binding site [polypeptide binding]; other site 652103000162 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 652103000163 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 652103000164 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 652103000165 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 652103000166 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103000167 epoxyqueuosine reductase; Region: TIGR00276 652103000168 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 652103000169 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103000170 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 652103000171 C-terminal domain interface [polypeptide binding]; other site 652103000172 GSH binding site (G-site) [chemical binding]; other site 652103000173 dimer interface [polypeptide binding]; other site 652103000174 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 652103000175 N-terminal domain interface [polypeptide binding]; other site 652103000176 dimer interface [polypeptide binding]; other site 652103000177 substrate binding pocket (H-site) [chemical binding]; other site 652103000178 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 652103000179 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 652103000180 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 652103000181 putative NAD(P) binding site [chemical binding]; other site 652103000182 active site 652103000183 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 652103000184 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 652103000185 catalytic site [active] 652103000186 putative active site [active] 652103000187 putative substrate binding site [chemical binding]; other site 652103000188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 652103000189 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 652103000190 OstA-like protein; Region: OstA; pfam03968 652103000191 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 652103000192 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 652103000193 Walker A/P-loop; other site 652103000194 ATP binding site [chemical binding]; other site 652103000195 Q-loop/lid; other site 652103000196 ABC transporter signature motif; other site 652103000197 Walker B; other site 652103000198 D-loop; other site 652103000199 H-loop/switch region; other site 652103000200 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 652103000201 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 652103000202 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 652103000203 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 652103000204 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 652103000205 30S subunit binding site; other site 652103000206 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 652103000207 active site 652103000208 phosphorylation site [posttranslational modification] 652103000209 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 652103000210 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 652103000211 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 652103000212 putative dimer interface [polypeptide binding]; other site 652103000213 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 652103000214 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 652103000215 Walker A/P-loop; other site 652103000216 ATP binding site [chemical binding]; other site 652103000217 Q-loop/lid; other site 652103000218 ABC transporter signature motif; other site 652103000219 Walker B; other site 652103000220 D-loop; other site 652103000221 H-loop/switch region; other site 652103000222 TOBE domain; Region: TOBE_2; pfam08402 652103000223 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 652103000224 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 652103000225 dimer interface [polypeptide binding]; other site 652103000226 conserved gate region; other site 652103000227 putative PBP binding loops; other site 652103000228 ABC-ATPase subunit interface; other site 652103000229 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 652103000230 ABC-ATPase subunit interface; other site 652103000231 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 652103000232 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 652103000233 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103000234 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103000235 TIGR02300 family protein; Region: FYDLN_acid 652103000236 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 652103000237 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 652103000238 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 652103000239 hinge; other site 652103000240 active site 652103000241 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 652103000242 putative acyl-acceptor binding pocket; other site 652103000243 cytidylate kinase; Provisional; Region: cmk; PRK00023 652103000244 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 652103000245 CMP-binding site; other site 652103000246 The sites determining sugar specificity; other site 652103000247 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 652103000248 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 652103000249 RNA binding site [nucleotide binding]; other site 652103000250 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 652103000251 RNA binding site [nucleotide binding]; other site 652103000252 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 652103000253 RNA binding site [nucleotide binding]; other site 652103000254 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 652103000255 RNA binding site [nucleotide binding]; other site 652103000256 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 652103000257 RNA binding site [nucleotide binding]; other site 652103000258 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 652103000259 RNA binding site [nucleotide binding]; other site 652103000260 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 652103000261 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 652103000262 tandem repeat interface [polypeptide binding]; other site 652103000263 oligomer interface [polypeptide binding]; other site 652103000264 active site residues [active] 652103000265 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 652103000266 IHF dimer interface [polypeptide binding]; other site 652103000267 IHF - DNA interface [nucleotide binding]; other site 652103000268 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 652103000269 active site 652103000270 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 652103000271 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 652103000272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103000273 catalytic residue [active] 652103000274 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 652103000275 substrate binding site [chemical binding]; other site 652103000276 active site 652103000277 catalytic residues [active] 652103000278 heterodimer interface [polypeptide binding]; other site 652103000279 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 652103000280 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 652103000281 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 652103000282 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 652103000283 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 652103000284 catalytic residues [active] 652103000285 Part of AAA domain; Region: AAA_19; pfam13245 652103000286 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 652103000287 Family description; Region: UvrD_C_2; pfam13538 652103000288 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 652103000289 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 652103000290 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 652103000291 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 652103000292 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 652103000293 Substrate binding site; other site 652103000294 metal-binding site 652103000295 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 652103000296 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 652103000297 Phosphotransferase enzyme family; Region: APH; pfam01636 652103000298 PAS fold; Region: PAS_7; pfam12860 652103000299 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 652103000300 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 652103000301 dimer interface [polypeptide binding]; other site 652103000302 phosphorylation site [posttranslational modification] 652103000303 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 652103000304 ATP binding site [chemical binding]; other site 652103000305 Mg2+ binding site [ion binding]; other site 652103000306 G-X-G motif; other site 652103000307 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 652103000308 trimer interface [polypeptide binding]; other site 652103000309 active site 652103000310 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 652103000311 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 652103000312 Flavoprotein; Region: Flavoprotein; pfam02441 652103000313 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 652103000314 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 652103000315 ABC1 family; Region: ABC1; cl17513 652103000316 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 652103000317 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 652103000318 S-adenosylmethionine binding site [chemical binding]; other site 652103000319 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 652103000320 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 652103000321 DNA binding site [nucleotide binding] 652103000322 catalytic residue [active] 652103000323 H2TH interface [polypeptide binding]; other site 652103000324 putative catalytic residues [active] 652103000325 turnover-facilitating residue; other site 652103000326 intercalation triad [nucleotide binding]; other site 652103000327 8OG recognition residue [nucleotide binding]; other site 652103000328 putative reading head residues; other site 652103000329 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 652103000330 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 652103000331 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 652103000332 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 652103000333 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 652103000334 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 652103000335 ATP binding site [chemical binding]; other site 652103000336 substrate interface [chemical binding]; other site 652103000337 Transmembrane secretion effector; Region: MFS_3; pfam05977 652103000338 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103000339 putative substrate translocation pore; other site 652103000340 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103000341 Phasin protein; Region: Phasin_2; cl11491 652103000342 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103000343 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103000344 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 652103000345 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 652103000346 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103000347 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103000348 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103000349 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 652103000350 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 652103000351 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103000352 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103000353 Walker A/P-loop; other site 652103000354 ATP binding site [chemical binding]; other site 652103000355 Q-loop/lid; other site 652103000356 ABC transporter signature motif; other site 652103000357 Walker B; other site 652103000358 D-loop; other site 652103000359 H-loop/switch region; other site 652103000360 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103000361 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103000362 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103000363 Walker A/P-loop; other site 652103000364 ATP binding site [chemical binding]; other site 652103000365 Q-loop/lid; other site 652103000366 ABC transporter signature motif; other site 652103000367 Walker B; other site 652103000368 D-loop; other site 652103000369 H-loop/switch region; other site 652103000370 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103000371 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 652103000372 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 652103000373 dimer interface [polypeptide binding]; other site 652103000374 conserved gate region; other site 652103000375 putative PBP binding loops; other site 652103000376 ABC-ATPase subunit interface; other site 652103000377 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103000378 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 652103000379 dimer interface [polypeptide binding]; other site 652103000380 conserved gate region; other site 652103000381 putative PBP binding loops; other site 652103000382 ABC-ATPase subunit interface; other site 652103000383 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 652103000384 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103000385 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 652103000386 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 652103000387 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 652103000388 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 652103000389 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 652103000390 active site 652103000391 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 652103000392 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103000393 DNA-binding site [nucleotide binding]; DNA binding site 652103000394 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 652103000395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103000396 homodimer interface [polypeptide binding]; other site 652103000397 catalytic residue [active] 652103000398 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103000399 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 652103000400 NAD(P) binding site [chemical binding]; other site 652103000401 catalytic residues [active] 652103000402 catalytic residues [active] 652103000403 SnoaL-like domain; Region: SnoaL_2; pfam12680 652103000404 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 652103000405 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 652103000406 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 652103000407 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 652103000408 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 652103000409 Phytochrome region; Region: PHY; pfam00360 652103000410 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 652103000411 ATP binding site [chemical binding]; other site 652103000412 Mg2+ binding site [ion binding]; other site 652103000413 G-X-G motif; other site 652103000414 Ion channel; Region: Ion_trans_2; pfam07885 652103000415 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 652103000416 TrkA-N domain; Region: TrkA_N; pfam02254 652103000417 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 652103000418 TrkA-N domain; Region: TrkA_N; pfam02254 652103000419 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 652103000420 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103000421 active site 652103000422 metal binding site [ion binding]; metal-binding site 652103000423 hexamer interface [polypeptide binding]; other site 652103000424 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 652103000425 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103000426 active site 652103000427 metal binding site [ion binding]; metal-binding site 652103000428 hexamer interface [polypeptide binding]; other site 652103000429 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 652103000430 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 652103000431 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 652103000432 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 652103000433 dimer interface [polypeptide binding]; other site 652103000434 conserved gate region; other site 652103000435 putative PBP binding loops; other site 652103000436 ABC-ATPase subunit interface; other site 652103000437 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 652103000438 dimer interface [polypeptide binding]; other site 652103000439 conserved gate region; other site 652103000440 putative PBP binding loops; other site 652103000441 ABC-ATPase subunit interface; other site 652103000442 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 652103000443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103000444 Walker A/P-loop; other site 652103000445 ATP binding site [chemical binding]; other site 652103000446 Q-loop/lid; other site 652103000447 ABC transporter signature motif; other site 652103000448 Walker B; other site 652103000449 D-loop; other site 652103000450 H-loop/switch region; other site 652103000451 TOBE domain; Region: TOBE_2; pfam08402 652103000452 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 652103000453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103000454 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 652103000455 dimerization interface [polypeptide binding]; other site 652103000456 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 652103000457 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103000458 Walker A/P-loop; other site 652103000459 ATP binding site [chemical binding]; other site 652103000460 Q-loop/lid; other site 652103000461 ABC transporter signature motif; other site 652103000462 Walker B; other site 652103000463 D-loop; other site 652103000464 H-loop/switch region; other site 652103000465 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 652103000466 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103000467 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 652103000468 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 652103000469 catalytic loop [active] 652103000470 iron binding site [ion binding]; other site 652103000471 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 652103000472 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 652103000473 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 652103000474 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 652103000475 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 652103000476 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 652103000477 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103000478 HAMP domain; Region: HAMP; pfam00672 652103000479 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 652103000480 PAS domain; Region: PAS_9; pfam13426 652103000481 putative active site [active] 652103000482 heme pocket [chemical binding]; other site 652103000483 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 652103000484 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 652103000485 putative active site [active] 652103000486 heme pocket [chemical binding]; other site 652103000487 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 652103000488 dimer interface [polypeptide binding]; other site 652103000489 phosphorylation site [posttranslational modification] 652103000490 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 652103000491 ATP binding site [chemical binding]; other site 652103000492 Mg2+ binding site [ion binding]; other site 652103000493 G-X-G motif; other site 652103000494 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103000495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103000496 active site 652103000497 phosphorylation site [posttranslational modification] 652103000498 intermolecular recognition site; other site 652103000499 dimerization interface [polypeptide binding]; other site 652103000500 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 652103000501 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 652103000502 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 652103000503 DEAD/DEAH box helicase; Region: DEAD; pfam00270 652103000504 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 652103000505 nucleotide binding region [chemical binding]; other site 652103000506 ATP-binding site [chemical binding]; other site 652103000507 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 652103000508 RNA binding surface [nucleotide binding]; other site 652103000509 Ferredoxin [Energy production and conversion]; Region: COG1146 652103000510 4Fe-4S binding domain; Region: Fer4; pfam00037 652103000511 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 652103000512 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 652103000513 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 652103000514 Peptidase family M48; Region: Peptidase_M48; pfam01435 652103000515 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103000516 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 652103000517 putative ligand binding site [chemical binding]; other site 652103000518 enoyl-CoA hydratase; Provisional; Region: PRK06688 652103000519 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 652103000520 substrate binding site [chemical binding]; other site 652103000521 oxyanion hole (OAH) forming residues; other site 652103000522 trimer interface [polypeptide binding]; other site 652103000523 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 652103000524 active site 652103000525 metal binding site [ion binding]; metal-binding site 652103000526 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 652103000527 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 652103000528 substrate binding site [chemical binding]; other site 652103000529 oxyanion hole (OAH) forming residues; other site 652103000530 trimer interface [polypeptide binding]; other site 652103000531 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103000532 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103000533 active site 652103000534 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103000535 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103000536 active site 652103000537 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 652103000538 classical (c) SDRs; Region: SDR_c; cd05233 652103000539 NAD(P) binding site [chemical binding]; other site 652103000540 active site 652103000541 Predicted membrane protein [Function unknown]; Region: COG2261 652103000542 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 652103000543 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 652103000544 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 652103000545 Prostaglandin dehydrogenases; Region: PGDH; cd05288 652103000546 NAD(P) binding site [chemical binding]; other site 652103000547 substrate binding site [chemical binding]; other site 652103000548 dimer interface [polypeptide binding]; other site 652103000549 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 652103000550 ATP-grasp domain; Region: ATP-grasp_4; cl17255 652103000551 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 652103000552 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 652103000553 active site 652103000554 FMN binding site [chemical binding]; other site 652103000555 substrate binding site [chemical binding]; other site 652103000556 3Fe-4S cluster binding site [ion binding]; other site 652103000557 Creatinine amidohydrolase; Region: Creatininase; pfam02633 652103000558 NMT1/THI5 like; Region: NMT1; pfam09084 652103000559 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 652103000560 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103000561 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103000562 Walker A/P-loop; other site 652103000563 ATP binding site [chemical binding]; other site 652103000564 Q-loop/lid; other site 652103000565 ABC transporter signature motif; other site 652103000566 Walker B; other site 652103000567 D-loop; other site 652103000568 H-loop/switch region; other site 652103000569 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103000570 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 652103000571 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 652103000572 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 652103000573 putative ligand binding site [chemical binding]; other site 652103000574 NAD binding site [chemical binding]; other site 652103000575 catalytic site [active] 652103000576 Uncharacterized conserved protein [Function unknown]; Region: COG5361 652103000577 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 652103000578 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 652103000579 succinic semialdehyde dehydrogenase; Region: PLN02278 652103000580 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 652103000581 tetramerization interface [polypeptide binding]; other site 652103000582 NAD(P) binding site [chemical binding]; other site 652103000583 catalytic residues [active] 652103000584 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 652103000585 Beta-lactamase; Region: Beta-lactamase; pfam00144 652103000586 AMP-binding domain protein; Validated; Region: PRK08315 652103000587 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103000588 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 652103000589 acyl-activating enzyme (AAE) consensus motif; other site 652103000590 putative AMP binding site [chemical binding]; other site 652103000591 putative active site [active] 652103000592 putative CoA binding site [chemical binding]; other site 652103000593 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 652103000594 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 652103000595 substrate binding site [chemical binding]; other site 652103000596 ATP binding site [chemical binding]; other site 652103000597 integral membrane protein MviN; Region: mviN; TIGR01695 652103000598 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 652103000599 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 652103000600 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 652103000601 active site 652103000602 HIGH motif; other site 652103000603 dimer interface [polypeptide binding]; other site 652103000604 KMSKS motif; other site 652103000605 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103000606 GTPase [General function prediction only]; Region: GTPBP1; COG5258 652103000607 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 652103000608 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 652103000609 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 652103000610 Glycoprotease family; Region: Peptidase_M22; pfam00814 652103000611 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 652103000612 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 652103000613 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 652103000614 metal binding site 2 [ion binding]; metal-binding site 652103000615 putative DNA binding helix; other site 652103000616 metal binding site 1 [ion binding]; metal-binding site 652103000617 dimer interface [polypeptide binding]; other site 652103000618 structural Zn2+ binding site [ion binding]; other site 652103000619 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 652103000620 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 652103000621 motif II; other site 652103000622 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 652103000623 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 652103000624 TRAM domain; Region: TRAM; cl01282 652103000625 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 652103000626 KH domain; Region: KH_1; pfam00013 652103000627 nucleic acid binding region [nucleotide binding]; other site 652103000628 G-X-X-G motif; other site 652103000629 PhoH-like protein; Region: PhoH; pfam02562 652103000630 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 652103000631 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 652103000632 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 652103000633 Transporter associated domain; Region: CorC_HlyC; smart01091 652103000634 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 652103000635 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 652103000636 putative active site [active] 652103000637 catalytic triad [active] 652103000638 putative dimer interface [polypeptide binding]; other site 652103000639 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103000640 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 652103000641 non-specific DNA binding site [nucleotide binding]; other site 652103000642 salt bridge; other site 652103000643 sequence-specific DNA binding site [nucleotide binding]; other site 652103000644 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 652103000645 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 652103000646 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 652103000647 ribosome maturation protein RimP; Reviewed; Region: PRK00092 652103000648 Sm and related proteins; Region: Sm_like; cl00259 652103000649 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 652103000650 putative oligomer interface [polypeptide binding]; other site 652103000651 putative RNA binding site [nucleotide binding]; other site 652103000652 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 652103000653 NusA N-terminal domain; Region: NusA_N; pfam08529 652103000654 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 652103000655 RNA binding site [nucleotide binding]; other site 652103000656 homodimer interface [polypeptide binding]; other site 652103000657 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 652103000658 G-X-X-G motif; other site 652103000659 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 652103000660 G-X-X-G motif; other site 652103000661 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 652103000662 hypothetical protein; Provisional; Region: PRK09190 652103000663 Protein of unknown function (DUF448); Region: DUF448; pfam04296 652103000664 putative RNA binding cleft [nucleotide binding]; other site 652103000665 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 652103000666 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 652103000667 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 652103000668 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 652103000669 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 652103000670 G1 box; other site 652103000671 putative GEF interaction site [polypeptide binding]; other site 652103000672 GTP/Mg2+ binding site [chemical binding]; other site 652103000673 Switch I region; other site 652103000674 G2 box; other site 652103000675 G3 box; other site 652103000676 Switch II region; other site 652103000677 G4 box; other site 652103000678 G5 box; other site 652103000679 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 652103000680 Translation-initiation factor 2; Region: IF-2; pfam11987 652103000681 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 652103000682 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 652103000683 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 652103000684 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 652103000685 RNA binding site [nucleotide binding]; other site 652103000686 active site 652103000687 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 652103000688 16S/18S rRNA binding site [nucleotide binding]; other site 652103000689 S13e-L30e interaction site [polypeptide binding]; other site 652103000690 25S rRNA binding site [nucleotide binding]; other site 652103000691 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 652103000692 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 652103000693 RNase E interface [polypeptide binding]; other site 652103000694 trimer interface [polypeptide binding]; other site 652103000695 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 652103000696 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 652103000697 RNase E interface [polypeptide binding]; other site 652103000698 trimer interface [polypeptide binding]; other site 652103000699 active site 652103000700 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 652103000701 putative nucleic acid binding region [nucleotide binding]; other site 652103000702 G-X-X-G motif; other site 652103000703 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 652103000704 RNA binding site [nucleotide binding]; other site 652103000705 domain interface; other site 652103000706 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 652103000707 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 652103000708 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 652103000709 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 652103000710 PAS domain; Region: PAS_9; pfam13426 652103000711 putative active site [active] 652103000712 heme pocket [chemical binding]; other site 652103000713 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 652103000714 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 652103000715 putative active site [active] 652103000716 heme pocket [chemical binding]; other site 652103000717 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 652103000718 putative active site [active] 652103000719 heme pocket [chemical binding]; other site 652103000720 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103000721 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103000722 dimer interface [polypeptide binding]; other site 652103000723 putative CheW interface [polypeptide binding]; other site 652103000724 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 652103000725 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103000726 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 652103000727 dimerization interface [polypeptide binding]; other site 652103000728 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 652103000729 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 652103000730 dimer interface [polypeptide binding]; other site 652103000731 active site 652103000732 heme binding site [chemical binding]; other site 652103000733 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 652103000734 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 652103000735 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 652103000736 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 652103000737 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103000738 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 652103000739 DNA binding residues [nucleotide binding] 652103000740 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 652103000741 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 652103000742 RNA binding surface [nucleotide binding]; other site 652103000743 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 652103000744 active site 652103000745 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 652103000746 active site 652103000747 Int/Topo IB signature motif; other site 652103000748 DNA binding site [nucleotide binding] 652103000749 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103000750 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 652103000751 non-specific DNA binding site [nucleotide binding]; other site 652103000752 salt bridge; other site 652103000753 sequence-specific DNA binding site [nucleotide binding]; other site 652103000754 Domain of unknown function (DUF955); Region: DUF955; pfam06114 652103000755 multiple promoter invertase; Provisional; Region: mpi; PRK13413 652103000756 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 652103000757 catalytic residues [active] 652103000758 catalytic nucleophile [active] 652103000759 Presynaptic Site I dimer interface [polypeptide binding]; other site 652103000760 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 652103000761 Synaptic Flat tetramer interface [polypeptide binding]; other site 652103000762 Synaptic Site I dimer interface [polypeptide binding]; other site 652103000763 DNA binding site [nucleotide binding] 652103000764 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 652103000765 DNA-binding interface [nucleotide binding]; DNA binding site 652103000766 PAS domain; Region: PAS_9; pfam13426 652103000767 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 652103000768 PAS domain; Region: PAS_9; pfam13426 652103000769 PAS fold; Region: PAS_3; pfam08447 652103000770 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103000771 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103000772 metal binding site [ion binding]; metal-binding site 652103000773 active site 652103000774 I-site; other site 652103000775 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 652103000776 methionine gamma-lyase; Provisional; Region: PRK07503 652103000777 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 652103000778 homodimer interface [polypeptide binding]; other site 652103000779 substrate-cofactor binding pocket; other site 652103000780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103000781 catalytic residue [active] 652103000782 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 652103000783 dimerization interface [polypeptide binding]; other site 652103000784 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 652103000785 putative DNA binding site [nucleotide binding]; other site 652103000786 putative Zn2+ binding site [ion binding]; other site 652103000787 AsnC family; Region: AsnC_trans_reg; pfam01037 652103000788 Archaeal DNA polymerase II, large subunit [DNA replication, recombination, and repair]; Region: COG1933 652103000789 thioredoxin 2; Provisional; Region: PRK10996 652103000790 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 652103000791 catalytic residues [active] 652103000792 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 652103000793 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 652103000794 putative NAD(P) binding site [chemical binding]; other site 652103000795 putative substrate binding site [chemical binding]; other site 652103000796 catalytic Zn binding site [ion binding]; other site 652103000797 structural Zn binding site [ion binding]; other site 652103000798 ChaB; Region: ChaB; pfam06150 652103000799 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 652103000800 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 652103000801 S-adenosylmethionine binding site [chemical binding]; other site 652103000802 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103000803 Ligand Binding Site [chemical binding]; other site 652103000804 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 652103000805 alpha-galactosidase; Provisional; Region: PRK15076 652103000806 NAD binding site [chemical binding]; other site 652103000807 sugar binding site [chemical binding]; other site 652103000808 divalent metal binding site [ion binding]; other site 652103000809 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 652103000810 dimer interface [polypeptide binding]; other site 652103000811 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 652103000812 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 652103000813 putative substrate binding site [chemical binding]; other site 652103000814 putative ATP binding site [chemical binding]; other site 652103000815 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 652103000816 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 652103000817 putative molybdopterin cofactor binding site [chemical binding]; other site 652103000818 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 652103000819 putative molybdopterin cofactor binding site; other site 652103000820 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 652103000821 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 652103000822 ligand binding site; other site 652103000823 oligomer interface; other site 652103000824 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 652103000825 dimer interface [polypeptide binding]; other site 652103000826 N-terminal domain interface [polypeptide binding]; other site 652103000827 sulfate 1 binding site; other site 652103000828 glycogen synthase; Provisional; Region: PRK14099 652103000829 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 652103000830 ADP-binding pocket [chemical binding]; other site 652103000831 homodimer interface [polypeptide binding]; other site 652103000832 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 652103000833 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 652103000834 substrate binding site [chemical binding]; other site 652103000835 oxyanion hole (OAH) forming residues; other site 652103000836 trimer interface [polypeptide binding]; other site 652103000837 hypothetical protein; Reviewed; Region: PRK00024 652103000838 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 652103000839 MPN+ (JAMM) motif; other site 652103000840 Zinc-binding site [ion binding]; other site 652103000841 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 652103000842 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 652103000843 putative DNA binding site [nucleotide binding]; other site 652103000844 putative homodimer interface [polypeptide binding]; other site 652103000845 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 652103000846 active site 652103000847 potassium/proton antiporter; Reviewed; Region: PRK05326 652103000848 Transporter associated domain; Region: CorC_HlyC; smart01091 652103000849 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 652103000850 PAS domain; Region: PAS; smart00091 652103000851 PAS fold; Region: PAS_7; pfam12860 652103000852 PAS domain S-box; Region: sensory_box; TIGR00229 652103000853 PAS domain; Region: PAS_8; pfam13188 652103000854 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103000855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103000856 metal binding site [ion binding]; metal-binding site 652103000857 active site 652103000858 I-site; other site 652103000859 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 652103000860 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 652103000861 Alkaline phosphatase homologues; Region: alkPPc; smart00098 652103000862 active site 652103000863 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 652103000864 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103000865 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103000866 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103000867 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103000868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103000869 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103000870 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 652103000871 argininosuccinate synthase; Provisional; Region: PRK13820 652103000872 ANP binding site [chemical binding]; other site 652103000873 Substrate Binding Site II [chemical binding]; other site 652103000874 Substrate Binding Site I [chemical binding]; other site 652103000875 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 652103000876 active site 652103000877 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 652103000878 HD domain; Region: HD_3; pfam13023 652103000879 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 652103000880 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 652103000881 FeS/SAM binding site; other site 652103000882 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 652103000883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000884 short chain dehydrogenase; Provisional; Region: PRK07677 652103000885 NAD(P) binding site [chemical binding]; other site 652103000886 active site 652103000887 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103000888 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 652103000889 NAD(P) binding site [chemical binding]; other site 652103000890 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 652103000891 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103000892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103000893 Uncharacterized conserved protein [Function unknown]; Region: COG3339 652103000894 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 652103000895 aromatic arch; other site 652103000896 DCoH dimer interaction site [polypeptide binding]; other site 652103000897 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 652103000898 DCoH tetramer interaction site [polypeptide binding]; other site 652103000899 substrate binding site [chemical binding]; other site 652103000900 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 652103000901 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 652103000902 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 652103000903 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 652103000904 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103000905 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103000906 N-terminal plug; other site 652103000907 ligand-binding site [chemical binding]; other site 652103000908 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 652103000909 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 652103000910 G1 box; other site 652103000911 putative GEF interaction site [polypeptide binding]; other site 652103000912 GTP/Mg2+ binding site [chemical binding]; other site 652103000913 Switch I region; other site 652103000914 G2 box; other site 652103000915 G3 box; other site 652103000916 Switch II region; other site 652103000917 G4 box; other site 652103000918 G5 box; other site 652103000919 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 652103000920 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 652103000921 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 652103000922 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 652103000923 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 652103000924 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 652103000925 dimer interface [polypeptide binding]; other site 652103000926 substrate binding site [chemical binding]; other site 652103000927 metal binding sites [ion binding]; metal-binding site 652103000928 hypothetical protein; Provisional; Region: PRK08262 652103000929 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 652103000930 metal binding site [ion binding]; metal-binding site 652103000931 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 652103000932 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 652103000933 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 652103000934 homodimer interface [polypeptide binding]; other site 652103000935 NADP binding site [chemical binding]; other site 652103000936 substrate binding site [chemical binding]; other site 652103000937 hypothetical protein; Validated; Region: PRK01310 652103000938 YGGT family; Region: YGGT; pfam02325 652103000939 enoyl-CoA hydratase; Provisional; Region: PRK06210 652103000940 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 652103000941 substrate binding site [chemical binding]; other site 652103000942 oxyanion hole (OAH) forming residues; other site 652103000943 trimer interface [polypeptide binding]; other site 652103000944 SnoaL-like domain; Region: SnoaL_2; pfam12680 652103000945 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 652103000946 classical (c) SDRs; Region: SDR_c; cd05233 652103000947 NAD(P) binding site [chemical binding]; other site 652103000948 active site 652103000949 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 652103000950 putative metal binding site [ion binding]; other site 652103000951 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 652103000952 Cytochrome P450; Region: p450; cl12078 652103000953 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 652103000954 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 652103000955 dimerization interface [polypeptide binding]; other site 652103000956 ligand binding site [chemical binding]; other site 652103000957 NADP binding site [chemical binding]; other site 652103000958 catalytic site [active] 652103000959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 652103000960 Bacterial SH3 domain; Region: SH3_4; pfam06347 652103000961 Bacterial SH3 domain; Region: SH3_4; pfam06347 652103000962 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 652103000963 metal binding site 2 [ion binding]; metal-binding site 652103000964 putative DNA binding helix; other site 652103000965 metal binding site 1 [ion binding]; metal-binding site 652103000966 dimer interface [polypeptide binding]; other site 652103000967 structural Zn2+ binding site [ion binding]; other site 652103000968 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 652103000969 active site 1 [active] 652103000970 dimer interface [polypeptide binding]; other site 652103000971 active site 2 [active] 652103000972 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 652103000973 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 652103000974 dimer interface [polypeptide binding]; other site 652103000975 active site 652103000976 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 652103000977 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 652103000978 NAD binding site [chemical binding]; other site 652103000979 homotetramer interface [polypeptide binding]; other site 652103000980 homodimer interface [polypeptide binding]; other site 652103000981 substrate binding site [chemical binding]; other site 652103000982 active site 652103000983 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 652103000984 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 652103000985 active site 652103000986 substrate-binding site [chemical binding]; other site 652103000987 metal-binding site [ion binding] 652103000988 ATP binding site [chemical binding]; other site 652103000989 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 652103000990 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 652103000991 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 652103000992 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103000993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103000994 active site 652103000995 phosphorylation site [posttranslational modification] 652103000996 intermolecular recognition site; other site 652103000997 dimerization interface [polypeptide binding]; other site 652103000998 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 652103000999 DNA binding site [nucleotide binding] 652103001000 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 652103001001 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 652103001002 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103001003 HAMP domain; Region: HAMP; pfam00672 652103001004 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 652103001005 dimer interface [polypeptide binding]; other site 652103001006 phosphorylation site [posttranslational modification] 652103001007 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 652103001008 ATP binding site [chemical binding]; other site 652103001009 Mg2+ binding site [ion binding]; other site 652103001010 G-X-G motif; other site 652103001011 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 652103001012 Hpr binding site; other site 652103001013 active site 652103001014 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 652103001015 active pocket/dimerization site; other site 652103001016 active site 652103001017 phosphorylation site [posttranslational modification] 652103001018 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 652103001019 dimerization domain swap beta strand [polypeptide binding]; other site 652103001020 regulatory protein interface [polypeptide binding]; other site 652103001021 active site 652103001022 regulatory phosphorylation site [posttranslational modification]; other site 652103001023 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 652103001024 GTP-binding protein LepA; Provisional; Region: PRK05433 652103001025 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 652103001026 G1 box; other site 652103001027 putative GEF interaction site [polypeptide binding]; other site 652103001028 GTP/Mg2+ binding site [chemical binding]; other site 652103001029 Switch I region; other site 652103001030 G2 box; other site 652103001031 G3 box; other site 652103001032 Switch II region; other site 652103001033 G4 box; other site 652103001034 G5 box; other site 652103001035 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 652103001036 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 652103001037 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 652103001038 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 652103001039 additional DNA contacts [nucleotide binding]; other site 652103001040 mismatch recognition site; other site 652103001041 active site 652103001042 zinc binding site [ion binding]; other site 652103001043 DNA intercalation site [nucleotide binding]; other site 652103001044 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 652103001045 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 652103001046 cofactor binding site; other site 652103001047 DNA binding site [nucleotide binding] 652103001048 substrate interaction site [chemical binding]; other site 652103001049 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103001050 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 652103001051 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 652103001052 CysZ-like protein; Reviewed; Region: PRK12768 652103001053 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 652103001054 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 652103001055 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 652103001056 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 652103001057 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 652103001058 minor groove reading motif; other site 652103001059 helix-hairpin-helix signature motif; other site 652103001060 substrate binding pocket [chemical binding]; other site 652103001061 active site 652103001062 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 652103001063 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 652103001064 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 652103001065 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 652103001066 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 652103001067 DNA binding site [nucleotide binding] 652103001068 active site 652103001069 phosphoglyceromutase; Provisional; Region: PRK05434 652103001070 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 652103001071 dihydrodipicolinate reductase; Provisional; Region: PRK00048 652103001072 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 652103001073 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 652103001074 Uncharacterized conserved protein [Function unknown]; Region: COG5470 652103001075 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 652103001076 active site 652103001077 dimer interface [polypeptide binding]; other site 652103001078 Predicted flavoprotein [General function prediction only]; Region: COG0431 652103001079 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 652103001080 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 652103001081 S-adenosylmethionine binding site [chemical binding]; other site 652103001082 chaperone protein DnaJ; Provisional; Region: PRK10767 652103001083 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 652103001084 HSP70 interaction site [polypeptide binding]; other site 652103001085 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 652103001086 substrate binding site [polypeptide binding]; other site 652103001087 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 652103001088 Zn binding sites [ion binding]; other site 652103001089 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 652103001090 dimer interface [polypeptide binding]; other site 652103001091 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 652103001092 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 652103001093 nucleotide binding site [chemical binding]; other site 652103001094 NEF interaction site [polypeptide binding]; other site 652103001095 SBD interface [polypeptide binding]; other site 652103001096 heat shock protein GrpE; Provisional; Region: PRK14141 652103001097 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 652103001098 dimer interface [polypeptide binding]; other site 652103001099 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 652103001100 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 652103001101 ribonuclease PH; Reviewed; Region: rph; PRK00173 652103001102 Ribonuclease PH; Region: RNase_PH_bact; cd11362 652103001103 hexamer interface [polypeptide binding]; other site 652103001104 active site 652103001105 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 652103001106 active site 652103001107 dimerization interface [polypeptide binding]; other site 652103001108 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 652103001109 HemN C-terminal domain; Region: HemN_C; pfam06969 652103001110 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103001111 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 652103001112 putative ligand binding site [chemical binding]; other site 652103001113 Predicted methyltransferases [General function prediction only]; Region: COG0313 652103001114 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 652103001115 putative SAM binding site [chemical binding]; other site 652103001116 putative homodimer interface [polypeptide binding]; other site 652103001117 hypothetical protein; Reviewed; Region: PRK12497 652103001118 glutathione synthetase; Provisional; Region: PRK05246 652103001119 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 652103001120 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 652103001121 Autoinducer binding domain; Region: Autoind_bind; pfam03472 652103001122 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103001123 DNA binding residues [nucleotide binding] 652103001124 dimerization interface [polypeptide binding]; other site 652103001125 Autoinducer synthetase; Region: Autoind_synth; cl17404 652103001126 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 652103001127 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 652103001128 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 652103001129 Walker A motif; other site 652103001130 ATP binding site [chemical binding]; other site 652103001131 Walker B motif; other site 652103001132 arginine finger; other site 652103001133 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 652103001134 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 652103001135 phosphorylation site [posttranslational modification] 652103001136 dimer interface [polypeptide binding]; other site 652103001137 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 652103001138 ATP binding site [chemical binding]; other site 652103001139 Mg2+ binding site [ion binding]; other site 652103001140 G-X-G motif; other site 652103001141 Response regulator receiver domain; Region: Response_reg; pfam00072 652103001142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001143 active site 652103001144 phosphorylation site [posttranslational modification] 652103001145 intermolecular recognition site; other site 652103001146 dimerization interface [polypeptide binding]; other site 652103001147 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 652103001148 pantothenate kinase; Provisional; Region: PRK05439 652103001149 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 652103001150 ATP-binding site [chemical binding]; other site 652103001151 CoA-binding site [chemical binding]; other site 652103001152 Mg2+-binding site [ion binding]; other site 652103001153 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 652103001154 metal binding site [ion binding]; metal-binding site 652103001155 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 652103001156 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 652103001157 substrate binding site [chemical binding]; other site 652103001158 glutamase interaction surface [polypeptide binding]; other site 652103001159 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 652103001160 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 652103001161 catalytic residues [active] 652103001162 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 652103001163 GIY-YIG motif/motif A; other site 652103001164 putative active site [active] 652103001165 putative metal binding site [ion binding]; other site 652103001166 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 652103001167 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 652103001168 putative active site [active] 652103001169 oxyanion strand; other site 652103001170 catalytic triad [active] 652103001171 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 652103001172 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 652103001173 putative active site pocket [active] 652103001174 4-fold oligomerization interface [polypeptide binding]; other site 652103001175 metal binding residues [ion binding]; metal-binding site 652103001176 3-fold/trimer interface [polypeptide binding]; other site 652103001177 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 652103001178 active site 652103001179 HslU subunit interaction site [polypeptide binding]; other site 652103001180 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 652103001181 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 652103001182 Walker A motif; other site 652103001183 ATP binding site [chemical binding]; other site 652103001184 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 652103001185 Walker B motif; other site 652103001186 arginine finger; other site 652103001187 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 652103001188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 652103001189 Smr domain; Region: Smr; pfam01713 652103001190 MltA specific insert domain; Region: MltA; smart00925 652103001191 3D domain; Region: 3D; pfam06725 652103001192 Tim44-like domain; Region: Tim44; pfam04280 652103001193 preprotein translocase subunit SecB; Validated; Region: PRK05751 652103001194 SecA binding site; other site 652103001195 Preprotein binding site; other site 652103001196 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 652103001197 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 652103001198 active site 652103001199 catalytic site [active] 652103001200 substrate binding site [chemical binding]; other site 652103001201 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 652103001202 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 652103001203 CoA-binding site [chemical binding]; other site 652103001204 ATP-binding [chemical binding]; other site 652103001205 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 652103001206 Maf-like protein; Region: Maf; pfam02545 652103001207 putative active site [active] 652103001208 PEP synthetase regulatory protein; Provisional; Region: PRK05339 652103001209 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 652103001210 transcription termination factor Rho; Provisional; Region: rho; PRK09376 652103001211 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 652103001212 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 652103001213 RNA binding site [nucleotide binding]; other site 652103001214 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 652103001215 multimer interface [polypeptide binding]; other site 652103001216 Walker A motif; other site 652103001217 ATP binding site [chemical binding]; other site 652103001218 Walker B motif; other site 652103001219 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 652103001220 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 652103001221 trmE is a tRNA modification GTPase; Region: trmE; cd04164 652103001222 G1 box; other site 652103001223 GTP/Mg2+ binding site [chemical binding]; other site 652103001224 Switch I region; other site 652103001225 G2 box; other site 652103001226 Switch II region; other site 652103001227 G3 box; other site 652103001228 G4 box; other site 652103001229 G5 box; other site 652103001230 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 652103001231 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 652103001232 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 652103001233 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 652103001234 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 652103001235 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 652103001236 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 652103001237 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 652103001238 P-loop; other site 652103001239 Magnesium ion binding site [ion binding]; other site 652103001240 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 652103001241 Magnesium ion binding site [ion binding]; other site 652103001242 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 652103001243 ParB-like nuclease domain; Region: ParB; smart00470 652103001244 KorB domain; Region: KorB; pfam08535 652103001245 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103001246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103001247 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103001248 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 652103001249 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 652103001250 Lipopolysaccharide-assembly; Region: LptE; cl01125 652103001251 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 652103001252 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 652103001253 HIGH motif; other site 652103001254 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 652103001255 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103001256 active site 652103001257 KMSKS motif; other site 652103001258 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 652103001259 tRNA binding surface [nucleotide binding]; other site 652103001260 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 652103001261 dimerization interface [polypeptide binding]; other site 652103001262 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103001263 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103001264 metal binding site [ion binding]; metal-binding site 652103001265 active site 652103001266 I-site; other site 652103001267 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 652103001268 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103001269 catalytic residue [active] 652103001270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 652103001271 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103001272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001273 active site 652103001274 phosphorylation site [posttranslational modification] 652103001275 intermolecular recognition site; other site 652103001276 dimerization interface [polypeptide binding]; other site 652103001277 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 652103001278 DNA binding site [nucleotide binding] 652103001279 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103001280 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 652103001281 ligand binding site [chemical binding]; other site 652103001282 flexible hinge region; other site 652103001283 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 652103001284 putative catalytic site [active] 652103001285 putative phosphate binding site [ion binding]; other site 652103001286 active site 652103001287 metal binding site A [ion binding]; metal-binding site 652103001288 DNA binding site [nucleotide binding] 652103001289 putative AP binding site [nucleotide binding]; other site 652103001290 putative metal binding site B [ion binding]; other site 652103001291 Methyltransferase domain; Region: Methyltransf_23; pfam13489 652103001292 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 652103001293 S-adenosylmethionine binding site [chemical binding]; other site 652103001294 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 652103001295 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 652103001296 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 652103001297 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 652103001298 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 652103001299 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 652103001300 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 652103001301 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 652103001302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103001303 homodimer interface [polypeptide binding]; other site 652103001304 catalytic residue [active] 652103001305 Protein of unknown function DUF86; Region: DUF86; cl01031 652103001306 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 652103001307 active site 652103001308 NTP binding site [chemical binding]; other site 652103001309 metal binding triad [ion binding]; metal-binding site 652103001310 antibiotic binding site [chemical binding]; other site 652103001311 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 652103001312 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 652103001313 Nitrogen regulatory protein P-II; Region: P-II; smart00938 652103001314 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 652103001315 Nitrogen regulatory protein P-II; Region: P-II; smart00938 652103001316 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 652103001317 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 652103001318 active site 652103001319 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 652103001320 catalytic triad [active] 652103001321 dimer interface [polypeptide binding]; other site 652103001322 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 652103001323 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 652103001324 Uncharacterized conserved protein [Function unknown]; Region: COG2835 652103001325 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 652103001326 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 652103001327 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 652103001328 catalytic residues [active] 652103001329 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 652103001330 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103001331 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 652103001332 dimer interface [polypeptide binding]; other site 652103001333 conserved gate region; other site 652103001334 putative PBP binding loops; other site 652103001335 ABC-ATPase subunit interface; other site 652103001336 NMT1-like family; Region: NMT1_2; pfam13379 652103001337 NMT1/THI5 like; Region: NMT1; pfam09084 652103001338 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103001339 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103001340 Walker A/P-loop; other site 652103001341 ATP binding site [chemical binding]; other site 652103001342 Q-loop/lid; other site 652103001343 ABC transporter signature motif; other site 652103001344 Walker B; other site 652103001345 D-loop; other site 652103001346 H-loop/switch region; other site 652103001347 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 652103001348 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 652103001349 active site residue [active] 652103001350 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 652103001351 active site residue [active] 652103001352 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103001353 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 652103001354 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103001355 OsmC-like protein; Region: OsmC; pfam02566 652103001356 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103001357 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103001358 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 652103001359 Uncharacterized conserved protein [Function unknown]; Region: COG0432 652103001360 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 652103001361 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 652103001362 dimer interface [polypeptide binding]; other site 652103001363 catalytic residue [active] 652103001364 metal binding site [ion binding]; metal-binding site 652103001365 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 652103001366 dimerization interface [polypeptide binding]; other site 652103001367 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 652103001368 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 652103001369 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 652103001370 active site 652103001371 UGMP family protein; Validated; Region: PRK09604 652103001372 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 652103001373 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 652103001374 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 652103001375 EVE domain; Region: EVE; pfam01878 652103001376 Predicted methyltransferase [General function prediction only]; Region: COG3897 652103001377 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 652103001378 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 652103001379 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 652103001380 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 652103001381 FeS/SAM binding site; other site 652103001382 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 652103001383 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 652103001384 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 652103001385 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 652103001386 Uncharacterized conserved protein [Function unknown]; Region: COG2968 652103001387 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 652103001388 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 652103001389 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 652103001390 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 652103001391 putative active site [active] 652103001392 homotetrameric interface [polypeptide binding]; other site 652103001393 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 652103001394 signal recognition particle protein; Provisional; Region: PRK10867 652103001395 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 652103001396 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 652103001397 P loop; other site 652103001398 GTP binding site [chemical binding]; other site 652103001399 Signal peptide binding domain; Region: SRP_SPB; pfam02978 652103001400 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 652103001401 RimM N-terminal domain; Region: RimM; pfam01782 652103001402 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 652103001403 PRC-barrel domain; Region: PRC; pfam05239 652103001404 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 652103001405 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 652103001406 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 652103001407 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 652103001408 substrate binding site [chemical binding]; other site 652103001409 ligand binding site [chemical binding]; other site 652103001410 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 652103001411 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 652103001412 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 652103001413 substrate binding site [chemical binding]; other site 652103001414 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103001415 dimer interface [polypeptide binding]; other site 652103001416 putative CheW interface [polypeptide binding]; other site 652103001417 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 652103001418 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 652103001419 active site clefts [active] 652103001420 zinc binding site [ion binding]; other site 652103001421 dimer interface [polypeptide binding]; other site 652103001422 hypothetical protein; Provisional; Region: PRK05208 652103001423 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 652103001424 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 652103001425 Transposase domain (DUF772); Region: DUF772; pfam05598 652103001426 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 652103001427 tartrate dehydrogenase; Region: TTC; TIGR02089 652103001428 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 652103001429 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 652103001430 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 652103001431 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 652103001432 Moco binding site; other site 652103001433 metal coordination site [ion binding]; other site 652103001434 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 652103001435 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 652103001436 Fasciclin domain; Region: Fasciclin; pfam02469 652103001437 malonyl-CoA synthase; Validated; Region: PRK07514 652103001438 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 652103001439 acyl-activating enzyme (AAE) consensus motif; other site 652103001440 active site 652103001441 AMP binding site [chemical binding]; other site 652103001442 CoA binding site [chemical binding]; other site 652103001443 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 652103001444 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 652103001445 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 652103001446 Iron-sulfur protein interface; other site 652103001447 proximal quinone binding site [chemical binding]; other site 652103001448 SdhD (CybS) interface [polypeptide binding]; other site 652103001449 proximal heme binding site [chemical binding]; other site 652103001450 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 652103001451 putative SdhC subunit interface [polypeptide binding]; other site 652103001452 putative proximal heme binding site [chemical binding]; other site 652103001453 putative Iron-sulfur protein interface [polypeptide binding]; other site 652103001454 putative proximal quinone binding site; other site 652103001455 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 652103001456 L-aspartate oxidase; Provisional; Region: PRK06175 652103001457 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 652103001458 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 652103001459 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 652103001460 catalytic loop [active] 652103001461 iron binding site [ion binding]; other site 652103001462 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 652103001463 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 652103001464 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103001465 ligand binding site [chemical binding]; other site 652103001466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103001467 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103001468 acetyl-CoA synthetase; Provisional; Region: PRK00174 652103001469 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 652103001470 active site 652103001471 CoA binding site [chemical binding]; other site 652103001472 acyl-activating enzyme (AAE) consensus motif; other site 652103001473 AMP binding site [chemical binding]; other site 652103001474 acetate binding site [chemical binding]; other site 652103001475 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 652103001476 active site 652103001477 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 652103001478 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 652103001479 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 652103001480 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 652103001481 P loop; other site 652103001482 GTP binding site [chemical binding]; other site 652103001483 intracellular septation protein A; Reviewed; Region: PRK00259 652103001484 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 652103001485 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 652103001486 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 652103001487 catalytic residues [active] 652103001488 central insert; other site 652103001489 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 652103001490 heme exporter protein CcmC; Region: ccmC; TIGR01191 652103001491 heme exporter protein CcmB; Region: ccmB; TIGR01190 652103001492 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 652103001493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103001494 Walker A/P-loop; other site 652103001495 ATP binding site [chemical binding]; other site 652103001496 Q-loop/lid; other site 652103001497 ABC transporter signature motif; other site 652103001498 Walker B; other site 652103001499 D-loop; other site 652103001500 H-loop/switch region; other site 652103001501 aconitate hydratase; Validated; Region: PRK09277 652103001502 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 652103001503 substrate binding site [chemical binding]; other site 652103001504 ligand binding site [chemical binding]; other site 652103001505 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 652103001506 substrate binding site [chemical binding]; other site 652103001507 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 652103001508 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 652103001509 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 652103001510 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103001511 Coenzyme A binding pocket [chemical binding]; other site 652103001512 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 652103001513 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 652103001514 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 652103001515 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 652103001516 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 652103001517 Walker A/P-loop; other site 652103001518 ATP binding site [chemical binding]; other site 652103001519 Q-loop/lid; other site 652103001520 ABC transporter signature motif; other site 652103001521 Walker B; other site 652103001522 D-loop; other site 652103001523 H-loop/switch region; other site 652103001524 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 652103001525 active site 652103001526 catalytic triad [active] 652103001527 oxyanion hole [active] 652103001528 switch loop; other site 652103001529 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 652103001530 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 652103001531 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 652103001532 Predicted ATPase [General function prediction only]; Region: COG1485 652103001533 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 652103001534 malate dehydrogenase; Reviewed; Region: PRK06223 652103001535 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 652103001536 NAD(P) binding site [chemical binding]; other site 652103001537 dimer interface [polypeptide binding]; other site 652103001538 tetramer (dimer of dimers) interface [polypeptide binding]; other site 652103001539 substrate binding site [chemical binding]; other site 652103001540 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 652103001541 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 652103001542 CoA-ligase; Region: Ligase_CoA; pfam00549 652103001543 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 652103001544 CoA binding domain; Region: CoA_binding; smart00881 652103001545 CoA-ligase; Region: Ligase_CoA; pfam00549 652103001546 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 652103001547 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 652103001548 TPP-binding site [chemical binding]; other site 652103001549 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 652103001550 dimer interface [polypeptide binding]; other site 652103001551 PYR/PP interface [polypeptide binding]; other site 652103001552 TPP binding site [chemical binding]; other site 652103001553 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 652103001554 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 652103001555 E3 interaction surface; other site 652103001556 lipoyl attachment site [posttranslational modification]; other site 652103001557 e3 binding domain; Region: E3_binding; pfam02817 652103001558 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 652103001559 MAPEG family; Region: MAPEG; cl09190 652103001560 short chain dehydrogenase; Provisional; Region: PRK06123 652103001561 classical (c) SDRs; Region: SDR_c; cd05233 652103001562 NAD(P) binding site [chemical binding]; other site 652103001563 active site 652103001564 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 652103001565 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103001566 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103001567 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 652103001568 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 652103001569 transmembrane helices; other site 652103001570 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 652103001571 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 652103001572 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 652103001573 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 652103001574 active site 652103001575 DNA binding site [nucleotide binding] 652103001576 Int/Topo IB signature motif; other site 652103001577 primosome assembly protein PriA; Validated; Region: PRK05580 652103001578 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 652103001579 ATP binding site [chemical binding]; other site 652103001580 putative Mg++ binding site [ion binding]; other site 652103001581 helicase superfamily c-terminal domain; Region: HELICc; smart00490 652103001582 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 652103001583 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 652103001584 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 652103001585 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 652103001586 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 652103001587 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 652103001588 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 652103001589 beta subunit interaction interface [polypeptide binding]; other site 652103001590 Walker A motif; other site 652103001591 ATP binding site [chemical binding]; other site 652103001592 Walker B motif; other site 652103001593 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 652103001594 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 652103001595 core domain interface [polypeptide binding]; other site 652103001596 delta subunit interface [polypeptide binding]; other site 652103001597 epsilon subunit interface [polypeptide binding]; other site 652103001598 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 652103001599 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 652103001600 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 652103001601 alpha subunit interaction interface [polypeptide binding]; other site 652103001602 Walker A motif; other site 652103001603 ATP binding site [chemical binding]; other site 652103001604 Walker B motif; other site 652103001605 inhibitor binding site; inhibition site 652103001606 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 652103001607 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13448 652103001608 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 652103001609 gamma subunit interface [polypeptide binding]; other site 652103001610 epsilon subunit interface [polypeptide binding]; other site 652103001611 LBP interface [polypeptide binding]; other site 652103001612 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 652103001613 putative active site [active] 652103001614 Ap4A binding site [chemical binding]; other site 652103001615 nudix motif; other site 652103001616 putative metal binding site [ion binding]; other site 652103001617 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 652103001618 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 652103001619 NAD binding site [chemical binding]; other site 652103001620 putative substrate binding site 2 [chemical binding]; other site 652103001621 putative substrate binding site 1 [chemical binding]; other site 652103001622 active site 652103001623 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 652103001624 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 652103001625 putative active site [active] 652103001626 Ap4A binding site [chemical binding]; other site 652103001627 nudix motif; other site 652103001628 putative metal binding site [ion binding]; other site 652103001629 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 652103001630 putative active site [active] 652103001631 NodB motif; other site 652103001632 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 652103001633 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 652103001634 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 652103001635 protein binding site [polypeptide binding]; other site 652103001636 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 652103001637 Catalytic dyad [active] 652103001638 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 652103001639 Peptidase family M23; Region: Peptidase_M23; pfam01551 652103001640 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 652103001641 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 652103001642 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 652103001643 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 652103001644 active site 652103001645 (T/H)XGH motif; other site 652103001646 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 652103001647 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 652103001648 putative catalytic cysteine [active] 652103001649 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 652103001650 gamma-glutamyl kinase; Provisional; Region: PRK05429 652103001651 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 652103001652 nucleotide binding site [chemical binding]; other site 652103001653 homotetrameric interface [polypeptide binding]; other site 652103001654 putative phosphate binding site [ion binding]; other site 652103001655 putative allosteric binding site; other site 652103001656 PUA domain; Region: PUA; pfam01472 652103001657 GTPase CgtA; Reviewed; Region: obgE; PRK12299 652103001658 GTP1/OBG; Region: GTP1_OBG; pfam01018 652103001659 Obg GTPase; Region: Obg; cd01898 652103001660 G1 box; other site 652103001661 GTP/Mg2+ binding site [chemical binding]; other site 652103001662 Switch I region; other site 652103001663 G2 box; other site 652103001664 G3 box; other site 652103001665 Switch II region; other site 652103001666 G4 box; other site 652103001667 G5 box; other site 652103001668 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 652103001669 EamA-like transporter family; Region: EamA; cl17759 652103001670 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 652103001671 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 652103001672 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 652103001673 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 652103001674 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 652103001675 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 652103001676 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 652103001677 nucleotide binding site [chemical binding]; other site 652103001678 HipA N-terminal domain; Region: Couple_hipA; pfam13657 652103001679 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 652103001680 HipA-like N-terminal domain; Region: HipA_N; pfam07805 652103001681 HipA-like C-terminal domain; Region: HipA_C; pfam07804 652103001682 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 652103001683 non-specific DNA binding site [nucleotide binding]; other site 652103001684 salt bridge; other site 652103001685 sequence-specific DNA binding site [nucleotide binding]; other site 652103001686 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 652103001687 coenzyme F420 hydrogenase, subunit alpha; Region: frhA; TIGR03295 652103001688 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 652103001689 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 652103001690 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 652103001691 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 652103001692 hydrogenase 1 large subunit; Provisional; Region: PRK10170 652103001693 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 652103001694 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 652103001695 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 652103001696 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 652103001697 putative substrate-binding site; other site 652103001698 nickel binding site [ion binding]; other site 652103001699 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 652103001700 HupF/HypC family; Region: HupF_HypC; pfam01455 652103001701 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 652103001702 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 652103001703 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 652103001704 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 652103001705 Rubredoxin; Region: Rubredoxin; pfam00301 652103001706 iron binding site [ion binding]; other site 652103001707 [NiFe] hydrogenase assembly chaperone, HybE family; Region: hydrog_HybE; TIGR03993 652103001708 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 652103001709 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 652103001710 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 652103001711 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 652103001712 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 652103001713 Acylphosphatase; Region: Acylphosphatase; pfam00708 652103001714 HypF finger; Region: zf-HYPF; pfam07503 652103001715 HypF finger; Region: zf-HYPF; pfam07503 652103001716 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 652103001717 HupF/HypC family; Region: HupF_HypC; pfam01455 652103001718 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 652103001719 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 652103001720 dimerization interface [polypeptide binding]; other site 652103001721 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 652103001722 ATP binding site [chemical binding]; other site 652103001723 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 652103001724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001725 active site 652103001726 phosphorylation site [posttranslational modification] 652103001727 intermolecular recognition site; other site 652103001728 dimerization interface [polypeptide binding]; other site 652103001729 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 652103001730 Walker A motif; other site 652103001731 ATP binding site [chemical binding]; other site 652103001732 Walker B motif; other site 652103001733 arginine finger; other site 652103001734 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 652103001735 PAS domain; Region: PAS; smart00091 652103001736 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 652103001737 dimer interface [polypeptide binding]; other site 652103001738 phosphorylation site [posttranslational modification] 652103001739 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 652103001740 ATP binding site [chemical binding]; other site 652103001741 Mg2+ binding site [ion binding]; other site 652103001742 G-X-G motif; other site 652103001743 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 652103001744 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 652103001745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001746 active site 652103001747 phosphorylation site [posttranslational modification] 652103001748 intermolecular recognition site; other site 652103001749 dimerization interface [polypeptide binding]; other site 652103001750 CheB methylesterase; Region: CheB_methylest; pfam01339 652103001751 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 652103001752 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 652103001753 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 652103001754 S-adenosylmethionine binding site [chemical binding]; other site 652103001755 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 652103001756 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103001757 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103001758 dimer interface [polypeptide binding]; other site 652103001759 putative CheW interface [polypeptide binding]; other site 652103001760 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 652103001761 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 652103001762 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 652103001763 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 652103001764 putative binding surface; other site 652103001765 active site 652103001766 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 652103001767 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 652103001768 ATP binding site [chemical binding]; other site 652103001769 Mg2+ binding site [ion binding]; other site 652103001770 G-X-G motif; other site 652103001771 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 652103001772 Response regulator receiver domain; Region: Response_reg; pfam00072 652103001773 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001774 active site 652103001775 phosphorylation site [posttranslational modification] 652103001776 intermolecular recognition site; other site 652103001777 dimerization interface [polypeptide binding]; other site 652103001778 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 652103001779 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 652103001780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001781 active site 652103001782 phosphorylation site [posttranslational modification] 652103001783 intermolecular recognition site; other site 652103001784 dimerization interface [polypeptide binding]; other site 652103001785 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 652103001786 Zn2+ binding site [ion binding]; other site 652103001787 Mg2+ binding site [ion binding]; other site 652103001788 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 652103001789 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 652103001790 D-pathway; other site 652103001791 Putative ubiquinol binding site [chemical binding]; other site 652103001792 Low-spin heme (heme b) binding site [chemical binding]; other site 652103001793 Putative water exit pathway; other site 652103001794 Binuclear center (heme o3/CuB) [ion binding]; other site 652103001795 K-pathway; other site 652103001796 Putative proton exit pathway; other site 652103001797 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 652103001798 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 652103001799 Predicted membrane protein (DUF2231); Region: DUF2231; pfam09990 652103001800 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 652103001801 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 652103001802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 652103001803 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 652103001804 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 652103001805 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 652103001806 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 652103001807 metal ion-dependent adhesion site (MIDAS); other site 652103001808 Domain of unknown function DUF29; Region: DUF29; pfam01724 652103001809 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 652103001810 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 652103001811 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 652103001812 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 652103001813 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 652103001814 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 652103001815 HSP70 interaction site [polypeptide binding]; other site 652103001816 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 652103001817 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 652103001818 Domain of unknown function DUF21; Region: DUF21; pfam01595 652103001819 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 652103001820 Transporter associated domain; Region: CorC_HlyC; smart01091 652103001821 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 652103001822 active site 652103001823 dimer interface [polypeptide binding]; other site 652103001824 metal binding site [ion binding]; metal-binding site 652103001825 shikimate kinase; Provisional; Region: PRK13946 652103001826 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 652103001827 ADP binding site [chemical binding]; other site 652103001828 magnesium binding site [ion binding]; other site 652103001829 putative shikimate binding site; other site 652103001830 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 652103001831 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 652103001832 active site 652103001833 DNA binding site [nucleotide binding] 652103001834 Int/Topo IB signature motif; other site 652103001835 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 652103001836 Predicted transcriptional regulators [Transcription]; Region: COG1695 652103001837 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 652103001838 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 652103001839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 652103001840 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 652103001841 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 652103001842 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 652103001843 SEC-C motif; Region: SEC-C; pfam02810 652103001844 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 652103001845 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 652103001846 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 652103001847 MutS domain I; Region: MutS_I; pfam01624 652103001848 MutS domain II; Region: MutS_II; pfam05188 652103001849 MutS domain III; Region: MutS_III; pfam05192 652103001850 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 652103001851 Walker A/P-loop; other site 652103001852 ATP binding site [chemical binding]; other site 652103001853 Q-loop/lid; other site 652103001854 ABC transporter signature motif; other site 652103001855 Walker B; other site 652103001856 D-loop; other site 652103001857 H-loop/switch region; other site 652103001858 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 652103001859 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 652103001860 dimer interface [polypeptide binding]; other site 652103001861 active site 652103001862 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 652103001863 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103001864 putative substrate translocation pore; other site 652103001865 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103001866 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 652103001867 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103001868 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103001869 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103001870 MarR family; Region: MarR; pfam01047 652103001871 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 652103001872 metal binding site 2 [ion binding]; metal-binding site 652103001873 putative DNA binding helix; other site 652103001874 metal binding site 1 [ion binding]; metal-binding site 652103001875 dimer interface [polypeptide binding]; other site 652103001876 structural Zn2+ binding site [ion binding]; other site 652103001877 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 652103001878 EamA-like transporter family; Region: EamA; pfam00892 652103001879 EamA-like transporter family; Region: EamA; pfam00892 652103001880 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 652103001881 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 652103001882 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 652103001883 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103001884 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103001885 metal binding site [ion binding]; metal-binding site 652103001886 active site 652103001887 I-site; other site 652103001888 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 652103001889 Sensors of blue-light using FAD; Region: BLUF; pfam04940 652103001890 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 652103001891 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 652103001892 substrate binding pocket [chemical binding]; other site 652103001893 chain length determination region; other site 652103001894 substrate-Mg2+ binding site; other site 652103001895 catalytic residues [active] 652103001896 aspartate-rich region 1; other site 652103001897 active site lid residues [active] 652103001898 aspartate-rich region 2; other site 652103001899 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 652103001900 Transglycosylase; Region: Transgly; cl17702 652103001901 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 652103001902 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 652103001903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 652103001904 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 652103001905 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 652103001906 putative acyltransferase; Provisional; Region: PRK05790 652103001907 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 652103001908 dimer interface [polypeptide binding]; other site 652103001909 active site 652103001910 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 652103001911 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 652103001912 NAD(P) binding site [chemical binding]; other site 652103001913 homotetramer interface [polypeptide binding]; other site 652103001914 homodimer interface [polypeptide binding]; other site 652103001915 active site 652103001916 EamA-like transporter family; Region: EamA; pfam00892 652103001917 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 652103001918 catalytic motif [active] 652103001919 Catalytic residue [active] 652103001920 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 652103001921 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 652103001922 ATP binding site [chemical binding]; other site 652103001923 putative Mg++ binding site [ion binding]; other site 652103001924 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 652103001925 nucleotide binding region [chemical binding]; other site 652103001926 ATP-binding site [chemical binding]; other site 652103001927 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 652103001928 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 652103001929 Predicted membrane protein [Function unknown]; Region: COG4763 652103001930 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103001931 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 652103001932 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 652103001933 Walker A motif; other site 652103001934 ATP binding site [chemical binding]; other site 652103001935 Walker B motif; other site 652103001936 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 652103001937 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103001938 putative substrate translocation pore; other site 652103001939 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103001940 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 652103001941 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 652103001942 Walker A motif; other site 652103001943 ATP binding site [chemical binding]; other site 652103001944 Walker B motif; other site 652103001945 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 652103001946 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 652103001947 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 652103001948 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 652103001949 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103001950 Walker A/P-loop; other site 652103001951 ATP binding site [chemical binding]; other site 652103001952 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 652103001953 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 652103001954 conjugal transfer protein TrbL; Provisional; Region: PRK13875 652103001955 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 652103001956 conjugal transfer protein TrbF; Provisional; Region: PRK13872 652103001957 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 652103001958 VirB7 interaction site; other site 652103001959 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 652103001960 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 652103001961 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 652103001962 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103001963 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 652103001964 dimerization interface [polypeptide binding]; other site 652103001965 substrate binding pocket [chemical binding]; other site 652103001966 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 652103001967 transcriptional regulator TraR; Provisional; Region: PRK13870 652103001968 Autoinducer binding domain; Region: Autoind_bind; pfam03472 652103001969 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103001970 DNA binding residues [nucleotide binding] 652103001971 dimerization interface [polypeptide binding]; other site 652103001972 choline dehydrogenase; Validated; Region: PRK02106 652103001973 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103001974 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 652103001975 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103001976 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103001977 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 652103001978 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 652103001979 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 652103001980 dimer interface [polypeptide binding]; other site 652103001981 conserved gate region; other site 652103001982 putative PBP binding loops; other site 652103001983 ABC-ATPase subunit interface; other site 652103001984 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 652103001985 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 652103001986 dimer interface [polypeptide binding]; other site 652103001987 conserved gate region; other site 652103001988 putative PBP binding loops; other site 652103001989 ABC-ATPase subunit interface; other site 652103001990 Transcriptional regulators [Transcription]; Region: FadR; COG2186 652103001991 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103001992 DNA-binding site [nucleotide binding]; DNA binding site 652103001993 FCD domain; Region: FCD; pfam07729 652103001994 glutathione reductase; Validated; Region: PRK06116 652103001995 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 652103001996 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103001997 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 652103001998 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103001999 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103002000 acyl-activating enzyme (AAE) consensus motif; other site 652103002001 AMP binding site [chemical binding]; other site 652103002002 active site 652103002003 CoA binding site [chemical binding]; other site 652103002004 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103002005 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 652103002006 tetramerization interface [polypeptide binding]; other site 652103002007 NAD(P) binding site [chemical binding]; other site 652103002008 catalytic residues [active] 652103002009 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 652103002010 active site 652103002011 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 652103002012 FAD binding domain; Region: FAD_binding_4; pfam01565 652103002013 FAD binding domain; Region: FAD_binding_4; pfam01565 652103002014 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 652103002015 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 652103002016 Cysteine-rich domain; Region: CCG; pfam02754 652103002017 Cysteine-rich domain; Region: CCG; pfam02754 652103002018 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103002019 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103002020 Walker A/P-loop; other site 652103002021 ATP binding site [chemical binding]; other site 652103002022 Q-loop/lid; other site 652103002023 ABC transporter signature motif; other site 652103002024 Walker B; other site 652103002025 D-loop; other site 652103002026 H-loop/switch region; other site 652103002027 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103002028 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103002029 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103002030 Walker A/P-loop; other site 652103002031 ATP binding site [chemical binding]; other site 652103002032 Q-loop/lid; other site 652103002033 ABC transporter signature motif; other site 652103002034 Walker B; other site 652103002035 D-loop; other site 652103002036 H-loop/switch region; other site 652103002037 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103002038 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 652103002039 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103002040 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 652103002041 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 652103002042 dimer interface [polypeptide binding]; other site 652103002043 conserved gate region; other site 652103002044 putative PBP binding loops; other site 652103002045 ABC-ATPase subunit interface; other site 652103002046 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103002047 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 652103002048 dimer interface [polypeptide binding]; other site 652103002049 conserved gate region; other site 652103002050 putative PBP binding loops; other site 652103002051 ABC-ATPase subunit interface; other site 652103002052 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 652103002053 FAD binding domain; Region: FAD_binding_4; pfam01565 652103002054 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 652103002055 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 652103002056 C-terminal domain interface [polypeptide binding]; other site 652103002057 GSH binding site (G-site) [chemical binding]; other site 652103002058 dimer interface [polypeptide binding]; other site 652103002059 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103002060 N-terminal domain interface [polypeptide binding]; other site 652103002061 dimer interface [polypeptide binding]; other site 652103002062 substrate binding pocket (H-site) [chemical binding]; other site 652103002063 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 652103002064 [2Fe-2S] cluster binding site [ion binding]; other site 652103002065 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 652103002066 iron-sulfur cluster [ion binding]; other site 652103002067 [2Fe-2S] cluster binding site [ion binding]; other site 652103002068 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 652103002069 putative alpha subunit interface [polypeptide binding]; other site 652103002070 putative active site [active] 652103002071 putative substrate binding site [chemical binding]; other site 652103002072 Fe binding site [ion binding]; other site 652103002073 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 652103002074 inter-subunit interface; other site 652103002075 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 652103002076 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 652103002077 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103002078 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 652103002079 active site 652103002080 NTP binding site [chemical binding]; other site 652103002081 metal binding triad [ion binding]; metal-binding site 652103002082 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 652103002083 active site 652103002084 nucleophile elbow; other site 652103002085 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 652103002086 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 652103002087 non-specific DNA binding site [nucleotide binding]; other site 652103002088 salt bridge; other site 652103002089 sequence-specific DNA binding site [nucleotide binding]; other site 652103002090 Domain found in IF2B/IF5; Region: eIF-5_eIF-2B; cl17014 652103002091 Domain of unknown function (DUF955); Region: DUF955; pfam06114 652103002092 integrase; Provisional; Region: PRK09692 652103002093 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 652103002094 active site 652103002095 Int/Topo IB signature motif; other site 652103002096 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 652103002097 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 652103002098 GAF domain; Region: GAF; pfam01590 652103002099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103002100 Histidine kinase; Region: HisKA_2; pfam07568 652103002101 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 652103002102 ATP binding site [chemical binding]; other site 652103002103 Mg2+ binding site [ion binding]; other site 652103002104 G-X-G motif; other site 652103002105 Response regulator receiver domain; Region: Response_reg; pfam00072 652103002106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103002107 active site 652103002108 phosphorylation site [posttranslational modification] 652103002109 intermolecular recognition site; other site 652103002110 dimerization interface [polypeptide binding]; other site 652103002111 PRC-barrel domain; Region: PRC; pfam05239 652103002112 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 652103002113 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 652103002114 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 652103002115 LrgA family; Region: LrgA; pfam03788 652103002116 LrgB-like family; Region: LrgB; pfam04172 652103002117 Predicted esterase [General function prediction only]; Region: COG0400 652103002118 putative hydrolase; Provisional; Region: PRK11460 652103002119 Domain of unknown function DUF20; Region: UPF0118; pfam01594 652103002120 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 652103002121 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 652103002122 Putative zinc-finger; Region: zf-HC2; pfam13490 652103002123 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 652103002124 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 652103002125 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103002126 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 652103002127 DNA binding residues [nucleotide binding] 652103002128 Methyltransferase domain; Region: Methyltransf_25; pfam13649 652103002129 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 652103002130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103002131 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 652103002132 putative dimerization interface [polypeptide binding]; other site 652103002133 putative substrate binding pocket [chemical binding]; other site 652103002134 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 652103002135 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 652103002136 hypothetical protein; Provisional; Region: PRK11171 652103002137 Cupin domain; Region: Cupin_2; pfam07883 652103002138 Cupin domain; Region: Cupin_2; pfam07883 652103002139 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 652103002140 ureidoglycolate hydrolase; Provisional; Region: PRK03606 652103002141 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 652103002142 S-adenosylmethionine binding site [chemical binding]; other site 652103002143 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 652103002144 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 652103002145 active site 652103002146 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 652103002147 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 652103002148 dimer interface [polypeptide binding]; other site 652103002149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103002150 catalytic residue [active] 652103002151 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 652103002152 ATP binding site [chemical binding]; other site 652103002153 active site 652103002154 substrate binding site [chemical binding]; other site 652103002155 Pirin-related protein [General function prediction only]; Region: COG1741 652103002156 Pirin; Region: Pirin; pfam02678 652103002157 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 652103002158 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 652103002159 PAS domain; Region: PAS_9; pfam13426 652103002160 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 652103002161 putative active site [active] 652103002162 heme pocket [chemical binding]; other site 652103002163 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 652103002164 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 652103002165 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 652103002166 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 652103002167 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 652103002168 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 652103002169 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103002170 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 652103002171 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 652103002172 metal ion-dependent adhesion site (MIDAS); other site 652103002173 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 652103002174 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 652103002175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103002176 active site 652103002177 phosphorylation site [posttranslational modification] 652103002178 intermolecular recognition site; other site 652103002179 dimerization interface [polypeptide binding]; other site 652103002180 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 652103002181 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103002182 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 652103002183 dimer interface [polypeptide binding]; other site 652103002184 phosphorylation site [posttranslational modification] 652103002185 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 652103002186 ATP binding site [chemical binding]; other site 652103002187 Mg2+ binding site [ion binding]; other site 652103002188 G-X-G motif; other site 652103002189 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 652103002190 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 652103002191 Walker A/P-loop; other site 652103002192 ATP binding site [chemical binding]; other site 652103002193 Q-loop/lid; other site 652103002194 ABC transporter signature motif; other site 652103002195 Walker B; other site 652103002196 D-loop; other site 652103002197 H-loop/switch region; other site 652103002198 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 652103002199 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 652103002200 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 652103002201 Protein of unknown function DUF45; Region: DUF45; pfam01863 652103002202 Transglycosylase; Region: Transgly; pfam00912 652103002203 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 652103002204 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 652103002205 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_8; cd06343 652103002206 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103002207 putative ligand binding site [chemical binding]; other site 652103002208 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 652103002209 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 652103002210 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 652103002211 putative active site [active] 652103002212 heme pocket [chemical binding]; other site 652103002213 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 652103002214 dimer interface [polypeptide binding]; other site 652103002215 phosphorylation site [posttranslational modification] 652103002216 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 652103002217 ATP binding site [chemical binding]; other site 652103002218 Mg2+ binding site [ion binding]; other site 652103002219 G-X-G motif; other site 652103002220 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103002221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103002222 active site 652103002223 phosphorylation site [posttranslational modification] 652103002224 intermolecular recognition site; other site 652103002225 dimerization interface [polypeptide binding]; other site 652103002226 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 652103002227 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 652103002228 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 652103002229 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 652103002230 RNA binding site [nucleotide binding]; other site 652103002231 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 652103002232 Chromate transporter; Region: Chromate_transp; pfam02417 652103002233 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 652103002234 short chain dehydrogenase; Provisional; Region: PRK06197 652103002235 putative NAD(P) binding site [chemical binding]; other site 652103002236 active site 652103002237 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103002238 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103002239 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 652103002240 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103002241 active site 652103002242 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 652103002243 C-terminal peptidase (prc); Region: prc; TIGR00225 652103002244 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 652103002245 protein binding site [polypeptide binding]; other site 652103002246 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 652103002247 Catalytic dyad [active] 652103002248 PII uridylyl-transferase; Provisional; Region: PRK05092 652103002249 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 652103002250 metal binding triad; other site 652103002251 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 652103002252 HD domain; Region: HD; pfam01966 652103002253 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 652103002254 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 652103002255 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 652103002256 heterotetramer interface [polypeptide binding]; other site 652103002257 active site pocket [active] 652103002258 cleavage site 652103002259 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 652103002260 active site 652103002261 8-oxo-dGMP binding site [chemical binding]; other site 652103002262 nudix motif; other site 652103002263 metal binding site [ion binding]; metal-binding site 652103002264 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 652103002265 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 652103002266 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103002267 active site 652103002268 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 652103002269 GSH binding site [chemical binding]; other site 652103002270 catalytic residues [active] 652103002271 nitrilase; Region: PLN02798 652103002272 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 652103002273 putative active site [active] 652103002274 catalytic triad [active] 652103002275 dimer interface [polypeptide binding]; other site 652103002276 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 652103002277 Predicted membrane protein [Function unknown]; Region: COG2510 652103002278 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 652103002279 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 652103002280 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 652103002281 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 652103002282 S-adenosylmethionine binding site [chemical binding]; other site 652103002283 aspartate kinase; Reviewed; Region: PRK06635 652103002284 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 652103002285 putative nucleotide binding site [chemical binding]; other site 652103002286 putative catalytic residues [active] 652103002287 putative Mg ion binding site [ion binding]; other site 652103002288 putative aspartate binding site [chemical binding]; other site 652103002289 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 652103002290 putative allosteric regulatory site; other site 652103002291 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 652103002292 putative allosteric regulatory residue; other site 652103002293 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 652103002294 GAF domain; Region: GAF; pfam01590 652103002295 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 652103002296 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 652103002297 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 652103002298 peptide chain release factor 1; Validated; Region: prfA; PRK00591 652103002299 This domain is found in peptide chain release factors; Region: PCRF; smart00937 652103002300 RF-1 domain; Region: RF-1; pfam00472 652103002301 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 652103002302 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 652103002303 S-adenosylmethionine binding site [chemical binding]; other site 652103002304 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 652103002305 Methyltransferase domain; Region: Methyltransf_23; pfam13489 652103002306 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 652103002307 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 652103002308 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 652103002309 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 652103002310 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 652103002311 substrate binding site [chemical binding]; other site 652103002312 ATP binding site [chemical binding]; other site 652103002313 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 652103002314 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 652103002315 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 652103002316 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 652103002317 putative NADH binding site [chemical binding]; other site 652103002318 putative active site [active] 652103002319 nudix motif; other site 652103002320 putative metal binding site [ion binding]; other site 652103002321 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 652103002322 nucleotide binding site/active site [active] 652103002323 HIT family signature motif; other site 652103002324 catalytic residue [active] 652103002325 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 652103002326 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 652103002327 Walker A motif; other site 652103002328 ATP binding site [chemical binding]; other site 652103002329 Walker B motif; other site 652103002330 arginine finger; other site 652103002331 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 652103002332 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 652103002333 hypothetical protein; Validated; Region: PRK00153 652103002334 recombination protein RecR; Reviewed; Region: recR; PRK00076 652103002335 RecR protein; Region: RecR; pfam02132 652103002336 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 652103002337 tetramer interface [polypeptide binding]; other site 652103002338 putative active site [active] 652103002339 putative metal-binding site [ion binding]; other site 652103002340 muropeptide transporter; Validated; Region: ampG; cl17669 652103002341 muropeptide transporter; Reviewed; Region: ampG; PRK11902 652103002342 RmuC family; Region: RmuC; pfam02646 652103002343 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 652103002344 active site 652103002345 catalytic residues [active] 652103002346 metal binding site [ion binding]; metal-binding site 652103002347 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 652103002348 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 652103002349 putative active site [active] 652103002350 substrate binding site [chemical binding]; other site 652103002351 putative cosubstrate binding site; other site 652103002352 catalytic site [active] 652103002353 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 652103002354 substrate binding site [chemical binding]; other site 652103002355 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 652103002356 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 652103002357 dimerization interface 3.5A [polypeptide binding]; other site 652103002358 active site 652103002359 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 652103002360 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 652103002361 metal binding site [ion binding]; metal-binding site 652103002362 dimer interface [polypeptide binding]; other site 652103002363 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 652103002364 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 652103002365 trimer interface [polypeptide binding]; other site 652103002366 active site 652103002367 substrate binding site [chemical binding]; other site 652103002368 CoA binding site [chemical binding]; other site 652103002369 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 652103002370 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 652103002371 motif II; other site 652103002372 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 652103002373 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 652103002374 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 652103002375 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 652103002376 feedback inhibition sensing region; other site 652103002377 homohexameric interface [polypeptide binding]; other site 652103002378 nucleotide binding site [chemical binding]; other site 652103002379 N-acetyl-L-glutamate binding site [chemical binding]; other site 652103002380 Protein of unknown function (DUF423); Region: DUF423; pfam04241 652103002381 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 652103002382 G1 box; other site 652103002383 GTP/Mg2+ binding site [chemical binding]; other site 652103002384 Switch I region; other site 652103002385 G2 box; other site 652103002386 G3 box; other site 652103002387 Switch II region; other site 652103002388 G4 box; other site 652103002389 G5 box; other site 652103002390 membrane protein insertase; Provisional; Region: PRK01318 652103002391 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 652103002392 Ribonuclease P; Region: Ribonuclease_P; cl00457 652103002393 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103002394 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 652103002395 ATP binding site [chemical binding]; other site 652103002396 Mg2+ binding site [ion binding]; other site 652103002397 G-X-G motif; other site 652103002398 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 652103002399 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 652103002400 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 652103002401 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 652103002402 catalytic triad [active] 652103002403 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 652103002404 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 652103002405 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 652103002406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103002407 DNA-binding site [nucleotide binding]; DNA binding site 652103002408 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 652103002409 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103002410 homodimer interface [polypeptide binding]; other site 652103002411 catalytic residue [active] 652103002412 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 652103002413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103002414 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 652103002415 dimerization interface [polypeptide binding]; other site 652103002416 Cupin domain; Region: Cupin_2; cl17218 652103002417 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 652103002418 SnoaL-like domain; Region: SnoaL_2; pfam12680 652103002419 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103002420 CoenzymeA binding site [chemical binding]; other site 652103002421 subunit interaction site [polypeptide binding]; other site 652103002422 PHB binding site; other site 652103002423 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional; Region: PRK12775 652103002424 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 652103002425 FAD binding pocket [chemical binding]; other site 652103002426 FAD binding motif [chemical binding]; other site 652103002427 phosphate binding motif [ion binding]; other site 652103002428 beta-alpha-beta structure motif; other site 652103002429 NAD binding pocket [chemical binding]; other site 652103002430 Iron coordination center [ion binding]; other site 652103002431 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103002432 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103002433 diiron binding motif [ion binding]; other site 652103002434 hypothetical protein; Provisional; Region: PRK01254 652103002435 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 652103002436 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 652103002437 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103002438 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103002439 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103002440 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103002441 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 652103002442 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 652103002443 Walker A/P-loop; other site 652103002444 ATP binding site [chemical binding]; other site 652103002445 Q-loop/lid; other site 652103002446 ABC transporter signature motif; other site 652103002447 Walker B; other site 652103002448 D-loop; other site 652103002449 H-loop/switch region; other site 652103002450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103002451 Walker A/P-loop; other site 652103002452 ATP binding site [chemical binding]; other site 652103002453 Q-loop/lid; other site 652103002454 ABC transporter signature motif; other site 652103002455 Walker B; other site 652103002456 D-loop; other site 652103002457 H-loop/switch region; other site 652103002458 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 652103002459 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 652103002460 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 652103002461 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 652103002462 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103002463 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 652103002464 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 652103002465 Transcriptional regulator [Transcription]; Region: IclR; COG1414 652103002466 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 652103002467 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 652103002468 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 652103002469 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 652103002470 active site 652103002471 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 652103002472 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 652103002473 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 652103002474 active site 652103002475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103002476 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 652103002477 Walker A/P-loop; other site 652103002478 ATP binding site [chemical binding]; other site 652103002479 Q-loop/lid; other site 652103002480 ABC transporter signature motif; other site 652103002481 Walker B; other site 652103002482 D-loop; other site 652103002483 H-loop/switch region; other site 652103002484 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 652103002485 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103002486 Walker A/P-loop; other site 652103002487 ATP binding site [chemical binding]; other site 652103002488 Q-loop/lid; other site 652103002489 ABC transporter signature motif; other site 652103002490 Walker B; other site 652103002491 D-loop; other site 652103002492 H-loop/switch region; other site 652103002493 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103002494 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 652103002495 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 652103002496 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 652103002497 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 652103002498 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 652103002499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103002500 DNA-binding site [nucleotide binding]; DNA binding site 652103002501 UTRA domain; Region: UTRA; pfam07702 652103002502 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 652103002503 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 652103002504 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 652103002505 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 652103002506 membrane-bound complex binding site; other site 652103002507 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 652103002508 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 652103002509 Walker A/P-loop; other site 652103002510 ATP binding site [chemical binding]; other site 652103002511 Q-loop/lid; other site 652103002512 ABC transporter signature motif; other site 652103002513 Walker B; other site 652103002514 D-loop; other site 652103002515 H-loop/switch region; other site 652103002516 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 652103002517 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 652103002518 trimer interface [polypeptide binding]; other site 652103002519 active site 652103002520 substrate binding site [chemical binding]; other site 652103002521 CoA binding site [chemical binding]; other site 652103002522 phosphonate metabolism protein PhnM; Region: phosphono_phnM; TIGR02318 652103002523 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 652103002524 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 652103002525 active site 652103002526 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 652103002527 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 652103002528 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 652103002529 putative active site [active] 652103002530 GIY-YIG motif/motif A; other site 652103002531 putative metal binding site [ion binding]; other site 652103002532 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 652103002533 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 652103002534 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 652103002535 substrate binding site [chemical binding]; other site 652103002536 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 652103002537 putative FMN binding site [chemical binding]; other site 652103002538 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 652103002539 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 652103002540 putative dimer interface [polypeptide binding]; other site 652103002541 active site pocket [active] 652103002542 putative cataytic base [active] 652103002543 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 652103002544 dimer interface [polypeptide binding]; other site 652103002545 [2Fe-2S] cluster binding site [ion binding]; other site 652103002546 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 652103002547 homotrimer interface [polypeptide binding]; other site 652103002548 Walker A motif; other site 652103002549 GTP binding site [chemical binding]; other site 652103002550 Walker B motif; other site 652103002551 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 652103002552 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 652103002553 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 652103002554 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 652103002555 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 652103002556 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 652103002557 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 652103002558 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 652103002559 homodimer interface [polypeptide binding]; other site 652103002560 Walker A motif; other site 652103002561 ATP binding site [chemical binding]; other site 652103002562 hydroxycobalamin binding site [chemical binding]; other site 652103002563 Walker B motif; other site 652103002564 cobyric acid synthase; Provisional; Region: PRK00784 652103002565 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 652103002566 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 652103002567 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 652103002568 catalytic triad [active] 652103002569 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 652103002570 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 652103002571 intersubunit interface [polypeptide binding]; other site 652103002572 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 652103002573 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 652103002574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103002575 homodimer interface [polypeptide binding]; other site 652103002576 catalytic residue [active] 652103002577 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 652103002578 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 652103002579 Walker A/P-loop; other site 652103002580 ATP binding site [chemical binding]; other site 652103002581 Q-loop/lid; other site 652103002582 ABC transporter signature motif; other site 652103002583 Walker B; other site 652103002584 D-loop; other site 652103002585 H-loop/switch region; other site 652103002586 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 652103002587 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 652103002588 ABC-ATPase subunit interface; other site 652103002589 dimer interface [polypeptide binding]; other site 652103002590 putative PBP binding regions; other site 652103002591 High-affinity nickel-transport protein; Region: NicO; cl00964 652103002592 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 652103002593 S-adenosylmethionine binding site [chemical binding]; other site 652103002594 Protein of unknown function (DUF3419); Region: DUF3419; pfam11899 652103002595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103002596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103002597 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 652103002598 dimerization interface [polypeptide binding]; other site 652103002599 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 652103002600 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 652103002601 putative dimer interface [polypeptide binding]; other site 652103002602 [2Fe-2S] cluster binding site [ion binding]; other site 652103002603 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 652103002604 putative dimer interface [polypeptide binding]; other site 652103002605 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 652103002606 SLBB domain; Region: SLBB; pfam10531 652103002607 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 652103002608 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 652103002609 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 652103002610 catalytic loop [active] 652103002611 iron binding site [ion binding]; other site 652103002612 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 652103002613 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 652103002614 [4Fe-4S] binding site [ion binding]; other site 652103002615 molybdopterin cofactor binding site; other site 652103002616 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 652103002617 molybdopterin cofactor binding site; other site 652103002618 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 652103002619 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 652103002620 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103002621 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103002622 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 652103002623 Cytochrome c553 [Energy production and conversion]; Region: COG2863 652103002624 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 652103002625 Cytochrome c; Region: Cytochrom_C; cl11414 652103002626 hydroperoxidase II; Provisional; Region: katE; PRK11249 652103002627 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 652103002628 heme binding pocket [chemical binding]; other site 652103002629 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 652103002630 domain interactions; other site 652103002631 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103002632 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103002633 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 652103002634 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 652103002635 Walker A motif; other site 652103002636 ATP binding site [chemical binding]; other site 652103002637 Walker B motif; other site 652103002638 arginine finger; other site 652103002639 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 652103002640 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 652103002641 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103002642 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103002643 acyl-activating enzyme (AAE) consensus motif; other site 652103002644 acyl-activating enzyme (AAE) consensus motif; other site 652103002645 putative AMP binding site [chemical binding]; other site 652103002646 putative active site [active] 652103002647 putative CoA binding site [chemical binding]; other site 652103002648 decaheme-associated outer membrane protein, MtrB/PioB family; Region: OMP_MtrB_PioB; TIGR03509 652103002649 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 652103002650 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 652103002651 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 652103002652 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 652103002653 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 652103002654 Walker A/P-loop; other site 652103002655 ATP binding site [chemical binding]; other site 652103002656 Q-loop/lid; other site 652103002657 ABC transporter signature motif; other site 652103002658 Walker B; other site 652103002659 D-loop; other site 652103002660 H-loop/switch region; other site 652103002661 TOBE-like domain; Region: TOBE_3; pfam12857 652103002662 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 652103002663 dimer interface [polypeptide binding]; other site 652103002664 conserved gate region; other site 652103002665 putative PBP binding loops; other site 652103002666 ABC-ATPase subunit interface; other site 652103002667 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 652103002668 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 652103002669 dimer interface [polypeptide binding]; other site 652103002670 conserved gate region; other site 652103002671 putative PBP binding loops; other site 652103002672 ABC-ATPase subunit interface; other site 652103002673 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 652103002674 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 652103002675 substrate binding pocket [chemical binding]; other site 652103002676 membrane-bound complex binding site; other site 652103002677 hinge residues; other site 652103002678 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 652103002679 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 652103002680 Active Sites [active] 652103002681 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 652103002682 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 652103002683 Active Sites [active] 652103002684 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 652103002685 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 652103002686 CysD dimerization site [polypeptide binding]; other site 652103002687 G1 box; other site 652103002688 putative GEF interaction site [polypeptide binding]; other site 652103002689 GTP/Mg2+ binding site [chemical binding]; other site 652103002690 Switch I region; other site 652103002691 G2 box; other site 652103002692 G3 box; other site 652103002693 Switch II region; other site 652103002694 G4 box; other site 652103002695 G5 box; other site 652103002696 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 652103002697 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 652103002698 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 652103002699 ligand-binding site [chemical binding]; other site 652103002700 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103002701 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103002702 Walker A/P-loop; other site 652103002703 ATP binding site [chemical binding]; other site 652103002704 Q-loop/lid; other site 652103002705 ABC transporter signature motif; other site 652103002706 Walker B; other site 652103002707 D-loop; other site 652103002708 H-loop/switch region; other site 652103002709 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103002710 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 652103002711 Amidase; Region: Amidase; pfam01425 652103002712 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 652103002713 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103002714 Walker A/P-loop; other site 652103002715 ATP binding site [chemical binding]; other site 652103002716 Q-loop/lid; other site 652103002717 ABC transporter signature motif; other site 652103002718 Walker B; other site 652103002719 D-loop; other site 652103002720 H-loop/switch region; other site 652103002721 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 652103002722 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 652103002723 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 652103002724 dimer interface [polypeptide binding]; other site 652103002725 conserved gate region; other site 652103002726 putative PBP binding loops; other site 652103002727 ABC-ATPase subunit interface; other site 652103002728 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103002729 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 652103002730 dimer interface [polypeptide binding]; other site 652103002731 conserved gate region; other site 652103002732 putative PBP binding loops; other site 652103002733 ABC-ATPase subunit interface; other site 652103002734 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 652103002735 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_8; cd08495 652103002736 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_8; cd08495 652103002737 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103002738 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 652103002739 Ca2+ binding site [ion binding]; other site 652103002740 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 652103002741 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103002742 N-terminal plug; other site 652103002743 ligand-binding site [chemical binding]; other site 652103002744 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103002745 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 652103002746 ligand binding site [chemical binding]; other site 652103002747 flexible hinge region; other site 652103002748 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 652103002749 putative switch regulator; other site 652103002750 non-specific DNA interactions [nucleotide binding]; other site 652103002751 DNA binding site [nucleotide binding] 652103002752 sequence specific DNA binding site [nucleotide binding]; other site 652103002753 putative cAMP binding site [chemical binding]; other site 652103002754 PAS domain; Region: PAS_9; pfam13426 652103002755 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103002756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103002757 metal binding site [ion binding]; metal-binding site 652103002758 active site 652103002759 I-site; other site 652103002760 Restriction endonuclease; Region: Mrr_cat; pfam04471 652103002761 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 652103002762 5' RNA guide strand anchoring site; other site 652103002763 active site 652103002764 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103002765 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 652103002766 non-specific DNA binding site [nucleotide binding]; other site 652103002767 salt bridge; other site 652103002768 sequence-specific DNA binding site [nucleotide binding]; other site 652103002769 Protein of unknown function (DUF736); Region: DUF736; pfam05284 652103002770 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 652103002771 Domain of unknown function (DUF932); Region: DUF932; cl12129 652103002772 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 652103002773 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 652103002774 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 652103002775 non-specific DNA binding site [nucleotide binding]; other site 652103002776 salt bridge; other site 652103002777 sequence-specific DNA binding site [nucleotide binding]; other site 652103002778 Helix-turn-helix domain; Region: HTH_17; pfam12728 652103002779 Replication initiator protein A; Region: RPA; pfam10134 652103002780 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 652103002781 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 652103002782 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 652103002783 Protein of unknown function (DUF736); Region: DUF736; pfam05284 652103002784 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 652103002785 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 652103002786 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103002787 catalytic residue [active] 652103002788 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 652103002789 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 652103002790 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 652103002791 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103002792 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103002793 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 652103002794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103002795 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 652103002796 dimerization interface [polypeptide binding]; other site 652103002797 substrate binding pocket [chemical binding]; other site 652103002798 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 652103002799 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 652103002800 Walker A motif; other site 652103002801 ATP binding site [chemical binding]; other site 652103002802 Walker B motif; other site 652103002803 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 652103002804 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 652103002805 Walker A motif; other site 652103002806 ATP binding site [chemical binding]; other site 652103002807 Walker B motif; other site 652103002808 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 652103002809 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 652103002810 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 652103002811 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 652103002812 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 652103002813 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 652103002814 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 652103002815 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 652103002816 conjugal transfer protein TrbL; Provisional; Region: PRK13875 652103002817 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 652103002818 conjugal transfer protein TrbF; Provisional; Region: PRK13872 652103002819 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 652103002820 VirB7 interaction site; other site 652103002821 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 652103002822 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 652103002823 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 652103002824 ATP binding site [chemical binding]; other site 652103002825 putative Mg++ binding site [ion binding]; other site 652103002826 helicase superfamily c-terminal domain; Region: HELICc; smart00490 652103002827 Predicted transcriptional regulator [Transcription]; Region: COG4190 652103002828 Helix-turn-helix domain; Region: HTH_20; pfam12840 652103002829 dimerization interface [polypeptide binding]; other site 652103002830 putative DNA binding site [nucleotide binding]; other site 652103002831 putative Zn2+ binding site [ion binding]; other site 652103002832 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 652103002833 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 652103002834 catalytic residues [active] 652103002835 catalytic nucleophile [active] 652103002836 Recombinase; Region: Recombinase; pfam07508 652103002837 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 652103002838 integrase; Provisional; Region: PRK09692 652103002839 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 652103002840 active site 652103002841 DNA binding site [nucleotide binding] 652103002842 Int/Topo IB signature motif; other site 652103002843 Superfamily II helicase [General function prediction only]; Region: COG1204 652103002844 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 652103002845 ATP binding site [chemical binding]; other site 652103002846 putative Mg++ binding site [ion binding]; other site 652103002847 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 652103002848 HNH endonuclease; Region: HNH_2; pfam13391 652103002849 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 652103002850 Methyltransferase domain; Region: Methyltransf_26; pfam13659 652103002851 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 652103002852 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 652103002853 ATP binding site [chemical binding]; other site 652103002854 putative Mg++ binding site [ion binding]; other site 652103002855 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 652103002856 nucleotide binding region [chemical binding]; other site 652103002857 ATP-binding site [chemical binding]; other site 652103002858 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 652103002859 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 652103002860 ATP binding site [chemical binding]; other site 652103002861 putative Mg++ binding site [ion binding]; other site 652103002862 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 652103002863 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 652103002864 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 652103002865 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 652103002866 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 652103002867 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 652103002868 ParB-like nuclease domain; Region: ParB; smart00470 652103002869 Toprim domain; Region: Toprim_3; pfam13362 652103002870 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 652103002871 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 652103002872 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 652103002873 putative DNA binding site [nucleotide binding]; other site 652103002874 putative Zn2+ binding site [ion binding]; other site 652103002875 Ligand-binding SRPBCC domain of Micromonospora echinospora CalC and related proteins; Region: SRPBCC_CalC; cd08891 652103002876 putative hydrophobic ligand binding site [chemical binding]; other site 652103002877 CLM binding site; other site 652103002878 L1 loop; other site 652103002879 DNA binding site [nucleotide binding] 652103002880 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 652103002881 RibD C-terminal domain; Region: RibD_C; cl17279 652103002882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103002883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103002884 Uncharacterized conserved protein [Function unknown]; Region: COG5489 652103002885 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103002886 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 652103002887 non-specific DNA binding site [nucleotide binding]; other site 652103002888 salt bridge; other site 652103002889 sequence-specific DNA binding site [nucleotide binding]; other site 652103002890 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 652103002891 Helix-turn-helix domain; Region: HTH_17; pfam12728 652103002892 Replication initiator protein A; Region: RPA; pfam10134 652103002893 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 652103002894 AAA domain; Region: AAA_31; pfam13614 652103002895 P-loop; other site 652103002896 Magnesium ion binding site [ion binding]; other site 652103002897 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 652103002898 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 652103002899 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 652103002900 Protein of unknown function (DUF736); Region: DUF736; pfam05284 652103002901 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 652103002902 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 652103002903 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103002904 catalytic residue [active] 652103002905 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 652103002906 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 652103002907 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 652103002908 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 652103002909 tetramer interface [polypeptide binding]; other site 652103002910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103002911 catalytic residue [active] 652103002912 Cupin domain; Region: Cupin_2; cl17218 652103002913 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 652103002914 dimerization interface [polypeptide binding]; other site 652103002915 putative DNA binding site [nucleotide binding]; other site 652103002916 putative Zn2+ binding site [ion binding]; other site 652103002917 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 652103002918 putative dimer interface [polypeptide binding]; other site 652103002919 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 652103002920 dimer interface [polypeptide binding]; other site 652103002921 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103002922 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103002923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103002924 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103002925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103002926 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 652103002927 putative effector binding pocket; other site 652103002928 dimerization interface [polypeptide binding]; other site 652103002929 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 652103002930 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 652103002931 Walker A motif; other site 652103002932 ATP binding site [chemical binding]; other site 652103002933 Walker B motif; other site 652103002934 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 652103002935 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 652103002936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103002937 catalytic residue [active] 652103002938 Epoxide hydrolase N terminus; Region: EHN; pfam06441 652103002939 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103002940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103002941 NmrA-like family; Region: NmrA; pfam05368 652103002942 NAD(P) binding site [chemical binding]; other site 652103002943 active site 652103002944 Predicted transcriptional regulator [Transcription]; Region: COG2378 652103002945 HTH domain; Region: HTH_11; pfam08279 652103002946 WYL domain; Region: WYL; pfam13280 652103002947 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 652103002948 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 652103002949 Walker A motif; other site 652103002950 ATP binding site [chemical binding]; other site 652103002951 Walker B motif; other site 652103002952 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 652103002953 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 652103002954 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 652103002955 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 652103002956 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; cd01120 652103002957 Walker A motif; other site 652103002958 ATP binding site [chemical binding]; other site 652103002959 Walker B motif; other site 652103002960 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 652103002961 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 652103002962 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 652103002963 conjugal transfer protein TrbL; Provisional; Region: PRK13875 652103002964 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 652103002965 conjugal transfer protein TrbF; Provisional; Region: PRK13872 652103002966 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 652103002967 VirB7 interaction site; other site 652103002968 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 652103002969 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 652103002970 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103002971 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103002972 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 652103002973 dimerization interface [polypeptide binding]; other site 652103002974 substrate binding pocket [chemical binding]; other site 652103002975 MarR family; Region: MarR_2; cl17246 652103002976 Methyltransferase domain; Region: Methyltransf_31; pfam13847 652103002977 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 652103002978 S-adenosylmethionine binding site [chemical binding]; other site 652103002979 Predicted thioesterase [General function prediction only]; Region: COG5496 652103002980 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103002981 CrcB-like protein; Region: CRCB; cl09114 652103002982 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 652103002983 Beta-lactamase; Region: Beta-lactamase; pfam00144 652103002984 hypothetical protein; Provisional; Region: PRK11770 652103002985 Domain of unknown function (DUF307); Region: DUF307; pfam03733 652103002986 Domain of unknown function (DUF307); Region: DUF307; pfam03733 652103002987 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 652103002988 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 652103002989 PAS fold; Region: PAS_7; pfam12860 652103002990 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103002991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103002992 metal binding site [ion binding]; metal-binding site 652103002993 active site 652103002994 I-site; other site 652103002995 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 652103002996 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 652103002997 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103002998 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103002999 active site 652103003000 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103003001 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103003002 metal binding site [ion binding]; metal-binding site 652103003003 active site 652103003004 I-site; other site 652103003005 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 652103003006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103003007 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 652103003008 NAD(P) binding site [chemical binding]; other site 652103003009 active site 652103003010 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 652103003011 Cytochrome P450; Region: p450; cl12078 652103003012 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 652103003013 cyclase homology domain; Region: CHD; cd07302 652103003014 nucleotidyl binding site; other site 652103003015 metal binding site [ion binding]; metal-binding site 652103003016 dimer interface [polypeptide binding]; other site 652103003017 heat shock protein HtpX; Provisional; Region: PRK01345 652103003018 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 652103003019 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103003020 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 652103003021 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103003022 catalytic residue [active] 652103003023 LssY C-terminus; Region: LssY_C; pfam14067 652103003024 Staphylococcal nuclease homologues; Region: SNc; smart00318 652103003025 Catalytic site; other site 652103003026 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103003027 Caspase domain; Region: Peptidase_C14; pfam00656 652103003028 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 652103003029 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 652103003030 active site 652103003031 zinc binding site [ion binding]; other site 652103003032 Predicted transcriptional regulator [Transcription]; Region: COG2932 652103003033 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 652103003034 Catalytic site [active] 652103003035 Protein of unknown function (DUF952); Region: DUF952; cl01393 652103003036 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 652103003037 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 652103003038 quinone interaction residues [chemical binding]; other site 652103003039 active site 652103003040 catalytic residues [active] 652103003041 FMN binding site [chemical binding]; other site 652103003042 substrate binding site [chemical binding]; other site 652103003043 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 652103003044 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_cladeC; cd03378 652103003045 active site clefts [active] 652103003046 zinc binding site [ion binding]; other site 652103003047 dimer interface [polypeptide binding]; other site 652103003048 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 652103003049 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 652103003050 ATP-dependent DNA ligase; Validated; Region: PRK09247 652103003051 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 652103003052 active site 652103003053 DNA binding site [nucleotide binding] 652103003054 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 652103003055 DNA binding site [nucleotide binding] 652103003056 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 652103003057 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 652103003058 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103003059 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103003060 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_8; cd06343 652103003061 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103003062 putative ligand binding site [chemical binding]; other site 652103003063 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 652103003064 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 652103003065 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 652103003066 putative Mg++ binding site [ion binding]; other site 652103003067 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 652103003068 nucleotide binding region [chemical binding]; other site 652103003069 ATP-binding site [chemical binding]; other site 652103003070 DEAD/H associated; Region: DEAD_assoc; pfam08494 652103003071 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 652103003072 putative active site [active] 652103003073 putative metal binding site [ion binding]; other site 652103003074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103003075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103003076 LysR substrate binding domain; Region: LysR_substrate; pfam03466 652103003077 dimerization interface [polypeptide binding]; other site 652103003078 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 652103003079 EamA-like transporter family; Region: EamA; pfam00892 652103003080 EamA-like transporter family; Region: EamA; pfam00892 652103003081 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 652103003082 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 652103003083 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 652103003084 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 652103003085 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 652103003086 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 652103003087 TPR motif; other site 652103003088 binding surface 652103003089 Sel1-like repeats; Region: SEL1; smart00671 652103003090 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103003091 SnoaL-like domain; Region: SnoaL_2; pfam12680 652103003092 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 652103003093 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 652103003094 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 652103003095 FAD binding site [chemical binding]; other site 652103003096 substrate binding site [chemical binding]; other site 652103003097 catalytic residues [active] 652103003098 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 652103003099 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 652103003100 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 652103003101 dimer interface [polypeptide binding]; other site 652103003102 active site 652103003103 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 652103003104 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 652103003105 substrate binding site [chemical binding]; other site 652103003106 oxyanion hole (OAH) forming residues; other site 652103003107 trimer interface [polypeptide binding]; other site 652103003108 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 652103003109 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 652103003110 glutathionine S-transferase; Provisional; Region: PRK10542 652103003111 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 652103003112 C-terminal domain interface [polypeptide binding]; other site 652103003113 GSH binding site (G-site) [chemical binding]; other site 652103003114 dimer interface [polypeptide binding]; other site 652103003115 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 652103003116 N-terminal domain interface [polypeptide binding]; other site 652103003117 dimer interface [polypeptide binding]; other site 652103003118 substrate binding pocket (H-site) [chemical binding]; other site 652103003119 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 652103003120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103003121 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 652103003122 dimerization interface [polypeptide binding]; other site 652103003123 putative peroxiredoxin; Provisional; Region: PRK13599 652103003124 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 652103003125 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 652103003126 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 652103003127 dimerization interface [polypeptide binding]; other site 652103003128 DPS ferroxidase diiron center [ion binding]; other site 652103003129 ion pore; other site 652103003130 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 652103003131 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103003132 glutamate--cysteine ligase; Region: PLN02611 652103003133 PAN domain; Region: PAN_4; pfam14295 652103003134 putative binding site; other site 652103003135 PAN domain; Region: PAN_4; pfam14295 652103003136 putative binding site; other site 652103003137 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 652103003138 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 652103003139 Catalytic site [active] 652103003140 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 652103003141 protease TldD; Provisional; Region: tldD; PRK10735 652103003142 Protein of unknown function (DUF433); Region: DUF433; pfam04255 652103003143 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103003144 MarR family; Region: MarR_2; cl17246 652103003145 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 652103003146 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 652103003147 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 652103003148 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 652103003149 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 652103003150 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 652103003151 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 652103003152 Subunit I/III interface [polypeptide binding]; other site 652103003153 D-pathway; other site 652103003154 Subunit I/VIIc interface [polypeptide binding]; other site 652103003155 Subunit I/IV interface [polypeptide binding]; other site 652103003156 Subunit I/II interface [polypeptide binding]; other site 652103003157 Low-spin heme (heme a) binding site [chemical binding]; other site 652103003158 Subunit I/VIIa interface [polypeptide binding]; other site 652103003159 Subunit I/VIa interface [polypeptide binding]; other site 652103003160 Dimer interface; other site 652103003161 Putative water exit pathway; other site 652103003162 Binuclear center (heme a3/CuB) [ion binding]; other site 652103003163 K-pathway; other site 652103003164 Subunit I/Vb interface [polypeptide binding]; other site 652103003165 Putative proton exit pathway; other site 652103003166 Subunit I/VIb interface; other site 652103003167 Subunit I/VIc interface [polypeptide binding]; other site 652103003168 Electron transfer pathway; other site 652103003169 Subunit I/VIIIb interface [polypeptide binding]; other site 652103003170 Subunit I/VIIb interface [polypeptide binding]; other site 652103003171 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 652103003172 UbiA prenyltransferase family; Region: UbiA; pfam01040 652103003173 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 652103003174 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 652103003175 Subunit III/VIIa interface [polypeptide binding]; other site 652103003176 Phospholipid binding site [chemical binding]; other site 652103003177 Subunit I/III interface [polypeptide binding]; other site 652103003178 Subunit III/VIb interface [polypeptide binding]; other site 652103003179 Subunit III/VIa interface; other site 652103003180 Subunit III/Vb interface [polypeptide binding]; other site 652103003181 Protein of unknown function (DUF983); Region: DUF983; cl02211 652103003182 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 652103003183 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 652103003184 YcfA-like protein; Region: YcfA; pfam07927 652103003185 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 652103003186 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 652103003187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103003188 catalytic residue [active] 652103003189 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 652103003190 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 652103003191 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 652103003192 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 652103003193 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 652103003194 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 652103003195 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 652103003196 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 652103003197 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 652103003198 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 652103003199 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 652103003200 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 652103003201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 652103003202 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 652103003203 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 652103003204 putative catalytic residue [active] 652103003205 endonuclease subunit; Provisional; Region: 46; PHA02562 652103003206 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 652103003207 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103003208 putative substrate translocation pore; other site 652103003209 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 652103003210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003211 active site 652103003212 phosphorylation site [posttranslational modification] 652103003213 intermolecular recognition site; other site 652103003214 dimerization interface [polypeptide binding]; other site 652103003215 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103003216 DNA binding residues [nucleotide binding] 652103003217 dimerization interface [polypeptide binding]; other site 652103003218 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 652103003219 Na binding site [ion binding]; other site 652103003220 PAS fold; Region: PAS_7; pfam12860 652103003221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103003222 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 652103003223 dimer interface [polypeptide binding]; other site 652103003224 phosphorylation site [posttranslational modification] 652103003225 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 652103003226 ATP binding site [chemical binding]; other site 652103003227 Mg2+ binding site [ion binding]; other site 652103003228 G-X-G motif; other site 652103003229 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103003230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003231 active site 652103003232 phosphorylation site [posttranslational modification] 652103003233 intermolecular recognition site; other site 652103003234 dimerization interface [polypeptide binding]; other site 652103003235 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 652103003236 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 652103003237 substrate-cofactor binding pocket; other site 652103003238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103003239 catalytic residue [active] 652103003240 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 652103003241 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 652103003242 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 652103003243 dimerization interface [polypeptide binding]; other site 652103003244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103003245 dimer interface [polypeptide binding]; other site 652103003246 putative CheW interface [polypeptide binding]; other site 652103003247 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103003248 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 652103003249 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 652103003250 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 652103003251 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 652103003252 ABC-ATPase subunit interface; other site 652103003253 dimer interface [polypeptide binding]; other site 652103003254 putative PBP binding regions; other site 652103003255 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 652103003256 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 652103003257 intersubunit interface [polypeptide binding]; other site 652103003258 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 652103003259 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 652103003260 P-loop, Walker A motif; other site 652103003261 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 652103003262 Base recognition motif; other site 652103003263 G4 box; other site 652103003264 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 652103003265 FOG: WD40 repeat [General function prediction only]; Region: COG2319 652103003266 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 652103003267 structural tetrad; other site 652103003268 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 652103003269 MgtC family; Region: MgtC; pfam02308 652103003270 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 652103003271 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 652103003272 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 652103003273 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 652103003274 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 652103003275 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 652103003276 homotrimer interaction site [polypeptide binding]; other site 652103003277 putative active site [active] 652103003278 Predicted acetyltransferase [General function prediction only]; Region: COG3153 652103003279 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 652103003280 dimer interface [polypeptide binding]; other site 652103003281 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 652103003282 active site 652103003283 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103003284 catalytic residues [active] 652103003285 substrate binding site [chemical binding]; other site 652103003286 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 652103003287 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 652103003288 active site 652103003289 Zn binding site [ion binding]; other site 652103003290 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 652103003291 High-affinity nickel-transport protein; Region: NicO; cl00964 652103003292 High-affinity nickel-transport protein; Region: NicO; cl00964 652103003293 ferrochelatase; Reviewed; Region: hemH; PRK00035 652103003294 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 652103003295 C-terminal domain interface [polypeptide binding]; other site 652103003296 active site 652103003297 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 652103003298 active site 652103003299 N-terminal domain interface [polypeptide binding]; other site 652103003300 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 652103003301 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 652103003302 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 652103003303 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103003304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103003305 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 652103003306 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 652103003307 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 652103003308 putative active site [active] 652103003309 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 652103003310 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 652103003311 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103003312 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103003313 metal binding site [ion binding]; metal-binding site 652103003314 active site 652103003315 I-site; other site 652103003316 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 652103003317 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 652103003318 active site 652103003319 tetramer interface; other site 652103003320 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 652103003321 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 652103003322 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 652103003323 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 652103003324 putative dimer interface [polypeptide binding]; other site 652103003325 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 652103003326 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 652103003327 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 652103003328 active site 652103003329 dimer interface [polypeptide binding]; other site 652103003330 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 652103003331 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 652103003332 active site 652103003333 FMN binding site [chemical binding]; other site 652103003334 substrate binding site [chemical binding]; other site 652103003335 3Fe-4S cluster binding site [ion binding]; other site 652103003336 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 652103003337 domain interface; other site 652103003338 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 652103003339 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 652103003340 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103003341 classical (c) SDRs; Region: SDR_c; cd05233 652103003342 NAD(P) binding site [chemical binding]; other site 652103003343 active site 652103003344 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 652103003345 classical (c) SDRs; Region: SDR_c; cd05233 652103003346 NAD(P) binding site [chemical binding]; other site 652103003347 active site 652103003348 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 652103003349 active site 652103003350 catalytic triad [active] 652103003351 oxyanion hole [active] 652103003352 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 652103003353 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 652103003354 dimer interface [polypeptide binding]; other site 652103003355 active site 652103003356 catalytic residue [active] 652103003357 Transglycosylase SLT domain; Region: SLT_2; pfam13406 652103003358 murein hydrolase B; Provisional; Region: PRK10760; cl17906 652103003359 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 652103003360 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 652103003361 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_22; cd08359 652103003362 putative dimer interface [polypeptide binding]; other site 652103003363 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103003364 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103003365 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 652103003366 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 652103003367 active site 652103003368 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 652103003369 Response regulator receiver domain; Region: Response_reg; pfam00072 652103003370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003371 active site 652103003372 phosphorylation site [posttranslational modification] 652103003373 intermolecular recognition site; other site 652103003374 dimerization interface [polypeptide binding]; other site 652103003375 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103003376 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103003377 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 652103003378 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 652103003379 catalytic loop [active] 652103003380 iron binding site [ion binding]; other site 652103003381 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 652103003382 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 652103003383 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 652103003384 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103003385 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 652103003386 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103003387 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 652103003388 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 652103003389 Pirin-related protein [General function prediction only]; Region: COG1741 652103003390 Pirin; Region: Pirin; pfam02678 652103003391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103003392 transcriptional regulator; Provisional; Region: PRK10632 652103003393 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 652103003394 putative effector binding pocket; other site 652103003395 dimerization interface [polypeptide binding]; other site 652103003396 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 652103003397 hypothetical protein; Validated; Region: PRK00228 652103003398 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 652103003399 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 652103003400 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 652103003401 PAS fold; Region: PAS_3; pfam08447 652103003402 putative active site [active] 652103003403 heme pocket [chemical binding]; other site 652103003404 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103003405 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103003406 metal binding site [ion binding]; metal-binding site 652103003407 active site 652103003408 I-site; other site 652103003409 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 652103003410 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 652103003411 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 652103003412 NAD(P) binding site [chemical binding]; other site 652103003413 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 652103003414 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 652103003415 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 652103003416 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 652103003417 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 652103003418 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103003419 Walker A/P-loop; other site 652103003420 ATP binding site [chemical binding]; other site 652103003421 Q-loop/lid; other site 652103003422 ABC transporter signature motif; other site 652103003423 Walker B; other site 652103003424 D-loop; other site 652103003425 H-loop/switch region; other site 652103003426 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 652103003427 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 652103003428 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103003429 Coenzyme A binding pocket [chemical binding]; other site 652103003430 hypothetical protein; Validated; Region: PRK09039 652103003431 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103003432 ligand binding site [chemical binding]; other site 652103003433 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 652103003434 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 652103003435 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 652103003436 S-adenosylmethionine binding site [chemical binding]; other site 652103003437 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 652103003438 salt bridge; other site 652103003439 non-specific DNA binding site [nucleotide binding]; other site 652103003440 sequence-specific DNA binding site [nucleotide binding]; other site 652103003441 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 652103003442 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 652103003443 Flavoprotein; Region: Flavoprotein; pfam02441 652103003444 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 652103003445 SCP-2 sterol transfer family; Region: SCP2; cl01225 652103003446 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 652103003447 Peptidase family U32; Region: Peptidase_U32; pfam01136 652103003448 putative protease; Provisional; Region: PRK15447 652103003449 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 652103003450 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 652103003451 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 652103003452 active site 652103003453 dimerization interface [polypeptide binding]; other site 652103003454 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 652103003455 Sel1-like repeats; Region: SEL1; smart00671 652103003456 Sel1-like repeats; Region: SEL1; smart00671 652103003457 Sel1-like repeats; Region: SEL1; smart00671 652103003458 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 652103003459 thiamine phosphate binding site [chemical binding]; other site 652103003460 pyrophosphate binding site [ion binding]; other site 652103003461 active site 652103003462 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 652103003463 active site 652103003464 intersubunit interface [polypeptide binding]; other site 652103003465 catalytic residue [active] 652103003466 Phosphoglycerate kinase; Region: PGK; pfam00162 652103003467 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 652103003468 substrate binding site [chemical binding]; other site 652103003469 hinge regions; other site 652103003470 ADP binding site [chemical binding]; other site 652103003471 catalytic site [active] 652103003472 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 652103003473 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 652103003474 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 652103003475 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 652103003476 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 652103003477 TPP-binding site [chemical binding]; other site 652103003478 dimer interface [polypeptide binding]; other site 652103003479 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 652103003480 PYR/PP interface [polypeptide binding]; other site 652103003481 dimer interface [polypeptide binding]; other site 652103003482 TPP binding site [chemical binding]; other site 652103003483 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103003484 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 652103003485 Cell division protein ZapA; Region: ZapA; pfam05164 652103003486 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 652103003487 multidrug efflux protein; Reviewed; Region: PRK01766 652103003488 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 652103003489 cation binding site [ion binding]; other site 652103003490 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 652103003491 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 652103003492 RNA binding surface [nucleotide binding]; other site 652103003493 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 652103003494 S-adenosylmethionine binding site [chemical binding]; other site 652103003495 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; pfam05014 652103003496 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 652103003497 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 652103003498 TPP-binding site; other site 652103003499 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 652103003500 PYR/PP interface [polypeptide binding]; other site 652103003501 dimer interface [polypeptide binding]; other site 652103003502 TPP binding site [chemical binding]; other site 652103003503 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103003504 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 652103003505 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 652103003506 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 652103003507 putative active site [active] 652103003508 Zn binding site [ion binding]; other site 652103003509 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 652103003510 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 652103003511 putative active site [active] 652103003512 putative metal binding site [ion binding]; other site 652103003513 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 652103003514 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 652103003515 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 652103003516 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103003517 Soluble P-type ATPase [General function prediction only]; Region: COG4087 652103003518 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 652103003519 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 652103003520 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 652103003521 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 652103003522 Ligand Binding Site [chemical binding]; other site 652103003523 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 652103003524 GAF domain; Region: GAF_3; pfam13492 652103003525 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 652103003526 dimer interface [polypeptide binding]; other site 652103003527 phosphorylation site [posttranslational modification] 652103003528 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 652103003529 ATP binding site [chemical binding]; other site 652103003530 Mg2+ binding site [ion binding]; other site 652103003531 G-X-G motif; other site 652103003532 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103003533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003534 active site 652103003535 phosphorylation site [posttranslational modification] 652103003536 intermolecular recognition site; other site 652103003537 dimerization interface [polypeptide binding]; other site 652103003538 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 652103003539 DNA binding site [nucleotide binding] 652103003540 enoyl-CoA hydratase; Provisional; Region: PRK06688 652103003541 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 652103003542 substrate binding site [chemical binding]; other site 652103003543 oxyanion hole (OAH) forming residues; other site 652103003544 trimer interface [polypeptide binding]; other site 652103003545 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103003546 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103003547 active site 652103003548 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 652103003549 urea carboxylase; Region: urea_carbox; TIGR02712 652103003550 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103003551 ATP-grasp domain; Region: ATP-grasp_4; cl17255 652103003552 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 652103003553 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 652103003554 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 652103003555 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 652103003556 carboxyltransferase (CT) interaction site; other site 652103003557 biotinylation site [posttranslational modification]; other site 652103003558 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 652103003559 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 652103003560 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 652103003561 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 652103003562 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 652103003563 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103003564 Walker A/P-loop; other site 652103003565 ATP binding site [chemical binding]; other site 652103003566 Q-loop/lid; other site 652103003567 ABC transporter signature motif; other site 652103003568 Walker B; other site 652103003569 D-loop; other site 652103003570 H-loop/switch region; other site 652103003571 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103003572 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 652103003573 dimer interface [polypeptide binding]; other site 652103003574 conserved gate region; other site 652103003575 putative PBP binding loops; other site 652103003576 ABC-ATPase subunit interface; other site 652103003577 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103003578 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 652103003579 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 652103003580 PAS fold; Region: PAS_3; pfam08447 652103003581 putative active site [active] 652103003582 heme pocket [chemical binding]; other site 652103003583 PAS domain S-box; Region: sensory_box; TIGR00229 652103003584 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 652103003585 putative active site [active] 652103003586 heme pocket [chemical binding]; other site 652103003587 PAS fold; Region: PAS_4; pfam08448 652103003588 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 652103003589 dimer interface [polypeptide binding]; other site 652103003590 phosphorylation site [posttranslational modification] 652103003591 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 652103003592 ATP binding site [chemical binding]; other site 652103003593 Mg2+ binding site [ion binding]; other site 652103003594 G-X-G motif; other site 652103003595 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103003596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003597 active site 652103003598 phosphorylation site [posttranslational modification] 652103003599 intermolecular recognition site; other site 652103003600 dimerization interface [polypeptide binding]; other site 652103003601 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 652103003602 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 652103003603 Bacterial transcriptional regulator; Region: IclR; pfam01614 652103003604 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 652103003605 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 652103003606 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 652103003607 alpha subunit interface [polypeptide binding]; other site 652103003608 active site 652103003609 substrate binding site [chemical binding]; other site 652103003610 Fe binding site [ion binding]; other site 652103003611 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 652103003612 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 652103003613 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 652103003614 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103003615 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 652103003616 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103003617 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 652103003618 TM-ABC transporter signature motif; other site 652103003619 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103003620 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 652103003621 TM-ABC transporter signature motif; other site 652103003622 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103003623 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103003624 Walker A/P-loop; other site 652103003625 ATP binding site [chemical binding]; other site 652103003626 Q-loop/lid; other site 652103003627 ABC transporter signature motif; other site 652103003628 Walker B; other site 652103003629 D-loop; other site 652103003630 H-loop/switch region; other site 652103003631 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103003632 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103003633 Walker A/P-loop; other site 652103003634 ATP binding site [chemical binding]; other site 652103003635 Q-loop/lid; other site 652103003636 ABC transporter signature motif; other site 652103003637 Walker B; other site 652103003638 D-loop; other site 652103003639 H-loop/switch region; other site 652103003640 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 652103003641 GAF domain; Region: GAF; pfam01590 652103003642 Phytochrome region; Region: PHY; pfam00360 652103003643 HWE histidine kinase; Region: HWE_HK; pfam07536 652103003644 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103003645 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003646 active site 652103003647 phosphorylation site [posttranslational modification] 652103003648 intermolecular recognition site; other site 652103003649 dimerization interface [polypeptide binding]; other site 652103003650 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103003651 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 652103003652 ligand binding site [chemical binding]; other site 652103003653 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 652103003654 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 652103003655 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103003656 ligand binding site [chemical binding]; other site 652103003657 flexible hinge region; other site 652103003658 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 652103003659 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 652103003660 catalytic core [active] 652103003661 Cysteine-rich small domain; Region: zf-like; cl00946 652103003662 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103003663 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103003664 active site 652103003665 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103003666 MarR family; Region: MarR_2; pfam12802 652103003667 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103003668 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 652103003669 putative ligand binding site [chemical binding]; other site 652103003670 amidase; Provisional; Region: PRK07235 652103003671 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 652103003672 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 652103003673 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103003674 TM-ABC transporter signature motif; other site 652103003675 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103003676 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 652103003677 ligand binding site [chemical binding]; other site 652103003678 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103003679 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 652103003680 TM-ABC transporter signature motif; other site 652103003681 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 652103003682 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103003683 Walker A/P-loop; other site 652103003684 ATP binding site [chemical binding]; other site 652103003685 Q-loop/lid; other site 652103003686 ABC transporter signature motif; other site 652103003687 Walker B; other site 652103003688 D-loop; other site 652103003689 H-loop/switch region; other site 652103003690 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103003691 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103003692 Walker A/P-loop; other site 652103003693 ATP binding site [chemical binding]; other site 652103003694 Q-loop/lid; other site 652103003695 ABC transporter signature motif; other site 652103003696 Walker B; other site 652103003697 D-loop; other site 652103003698 H-loop/switch region; other site 652103003699 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103003700 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 652103003701 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 652103003702 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 652103003703 dimerization interface [polypeptide binding]; other site 652103003704 putative DNA binding site [nucleotide binding]; other site 652103003705 putative Zn2+ binding site [ion binding]; other site 652103003706 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 652103003707 active site residue [active] 652103003708 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 652103003709 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 652103003710 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 652103003711 S-adenosylmethionine binding site [chemical binding]; other site 652103003712 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 652103003713 putative catalytic residues [active] 652103003714 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 652103003715 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 652103003716 molybdenum transport protein ModD; Provisional; Region: PRK06096 652103003717 dimerization interface [polypeptide binding]; other site 652103003718 active site 652103003719 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103003720 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103003721 acyl-activating enzyme (AAE) consensus motif; other site 652103003722 AMP binding site [chemical binding]; other site 652103003723 active site 652103003724 CoA binding site [chemical binding]; other site 652103003725 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 652103003726 active site 652103003727 Ap6A binding site [chemical binding]; other site 652103003728 nudix motif; other site 652103003729 metal binding site [ion binding]; metal-binding site 652103003730 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 652103003731 dimer interface [polypeptide binding]; other site 652103003732 tetramer interface [polypeptide binding]; other site 652103003733 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase; Region: PCA_45_Doxase_B_like_1; cd07949 652103003734 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 652103003735 putative active site [active] 652103003736 Fe(II) binding site [ion binding]; other site 652103003737 putative dimer interface [polypeptide binding]; other site 652103003738 putative tetramer interface [polypeptide binding]; other site 652103003739 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 652103003740 Cytochrome P450; Region: p450; cl12078 652103003741 Predicted permeases [General function prediction only]; Region: COG0730 652103003742 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 652103003743 4Fe-4S binding domain; Region: Fer4_5; pfam12801 652103003744 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 652103003745 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 652103003746 Predicted transcriptional regulators [Transcription]; Region: COG1695 652103003747 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 652103003748 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 652103003749 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 652103003750 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 652103003751 [2Fe-2S] cluster binding site [ion binding]; other site 652103003752 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 652103003753 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 652103003754 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 652103003755 dimerization interface [polypeptide binding]; other site 652103003756 putative DNA binding site [nucleotide binding]; other site 652103003757 putative Zn2+ binding site [ion binding]; other site 652103003758 HlyD family secretion protein; Region: HlyD_2; pfam12700 652103003759 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103003760 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103003761 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103003762 Protein export membrane protein; Region: SecD_SecF; cl14618 652103003763 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 652103003764 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 652103003765 catalytic residues [active] 652103003766 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 652103003767 FAD binding pocket [chemical binding]; other site 652103003768 FAD binding motif [chemical binding]; other site 652103003769 phosphate binding motif [ion binding]; other site 652103003770 beta-alpha-beta structure motif; other site 652103003771 NAD binding pocket [chemical binding]; other site 652103003772 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; pfam00173 652103003773 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 652103003774 DNA methylase; Region: N6_N4_Mtase; pfam01555 652103003775 Predicted metalloprotease [General function prediction only]; Region: COG2321 652103003776 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 652103003777 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 652103003778 MPT binding site; other site 652103003779 trimer interface [polypeptide binding]; other site 652103003780 Coenzyme A transferase; Region: CoA_trans; smart00882 652103003781 Coenzyme A transferase; Region: CoA_trans; cl17247 652103003782 L-type amino acid transporter; Region: 2A0308; TIGR00911 652103003783 Methyltransferase domain; Region: Methyltransf_31; pfam13847 652103003784 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 652103003785 S-adenosylmethionine binding site [chemical binding]; other site 652103003786 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103003787 MarR family; Region: MarR; pfam01047 652103003788 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103003789 Coenzyme A binding pocket [chemical binding]; other site 652103003790 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 652103003791 active site 652103003792 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 652103003793 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 652103003794 FeS/SAM binding site; other site 652103003795 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 652103003796 RNA/DNA hybrid binding site [nucleotide binding]; other site 652103003797 active site 652103003798 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 652103003799 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103003800 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103003801 N-terminal plug; other site 652103003802 ligand-binding site [chemical binding]; other site 652103003803 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 652103003804 Fe-S cluster binding site [ion binding]; other site 652103003805 active site 652103003806 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 652103003807 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 652103003808 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 652103003809 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 652103003810 binding surface 652103003811 TPR motif; other site 652103003812 TPR repeat; Region: TPR_11; pfam13414 652103003813 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 652103003814 binding surface 652103003815 TPR motif; other site 652103003816 TPR repeat; Region: TPR_11; pfam13414 652103003817 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 652103003818 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 652103003819 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 652103003820 substrate binding pocket [chemical binding]; other site 652103003821 chain length determination region; other site 652103003822 substrate-Mg2+ binding site; other site 652103003823 catalytic residues [active] 652103003824 aspartate-rich region 1; other site 652103003825 active site lid residues [active] 652103003826 aspartate-rich region 2; other site 652103003827 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 652103003828 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 652103003829 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 652103003830 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 652103003831 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 652103003832 tandem repeat interface [polypeptide binding]; other site 652103003833 oligomer interface [polypeptide binding]; other site 652103003834 active site residues [active] 652103003835 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 652103003836 dimer interface [polypeptide binding]; other site 652103003837 motif 1; other site 652103003838 active site 652103003839 motif 2; other site 652103003840 motif 3; other site 652103003841 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 652103003842 putative active site [active] 652103003843 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 652103003844 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 652103003845 Predicted membrane protein [Function unknown]; Region: COG3174 652103003846 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 652103003847 Protein of unknown function (DUF3096); Region: DUF3096; pfam11295 652103003848 pyruvate phosphate dikinase; Provisional; Region: PRK09279 652103003849 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 652103003850 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 652103003851 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 652103003852 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 652103003853 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 652103003854 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 652103003855 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 652103003856 dimerization interface [polypeptide binding]; other site 652103003857 active site 652103003858 L-aspartate oxidase; Provisional; Region: PRK07512 652103003859 L-aspartate oxidase; Provisional; Region: PRK06175 652103003860 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 652103003861 quinolinate synthetase; Provisional; Region: PRK09375 652103003862 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 652103003863 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 652103003864 NADP binding site [chemical binding]; other site 652103003865 dimer interface [polypeptide binding]; other site 652103003866 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 652103003867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103003868 DNA-binding site [nucleotide binding]; DNA binding site 652103003869 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 652103003870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103003871 homodimer interface [polypeptide binding]; other site 652103003872 catalytic residue [active] 652103003873 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 652103003874 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 652103003875 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 652103003876 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 652103003877 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 652103003878 ATP binding site [chemical binding]; other site 652103003879 putative Mg++ binding site [ion binding]; other site 652103003880 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 652103003881 nucleotide binding region [chemical binding]; other site 652103003882 ATP-binding site [chemical binding]; other site 652103003883 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 652103003884 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 652103003885 HD domain; Region: HD_3; cl17350 652103003886 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103003887 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103003888 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 652103003889 dimerization interface [polypeptide binding]; other site 652103003890 Domain of unknown function (DUF897); Region: DUF897; cl01312 652103003891 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 652103003892 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 652103003893 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 652103003894 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 652103003895 dihydroorotase; Validated; Region: PRK09060 652103003896 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 652103003897 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 652103003898 active site 652103003899 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 652103003900 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 652103003901 nudix motif; other site 652103003902 Uncharacterized conserved protein [Function unknown]; Region: COG2135 652103003903 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 652103003904 FAD binding domain; Region: FAD_binding_4; pfam01565 652103003905 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 652103003906 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 652103003907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103003908 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103003909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103003910 benzoate transport; Region: 2A0115; TIGR00895 652103003911 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103003912 putative substrate translocation pore; other site 652103003913 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 652103003914 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 652103003915 active site 652103003916 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 652103003917 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; pfam10614 652103003918 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 652103003919 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 652103003920 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 652103003921 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103003922 catalytic residue [active] 652103003923 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103003924 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 652103003925 ligand binding site [chemical binding]; other site 652103003926 flexible hinge region; other site 652103003927 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 652103003928 non-specific DNA interactions [nucleotide binding]; other site 652103003929 DNA binding site [nucleotide binding] 652103003930 sequence specific DNA binding site [nucleotide binding]; other site 652103003931 putative cAMP binding site [chemical binding]; other site 652103003932 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 652103003933 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 652103003934 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 652103003935 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 652103003936 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 652103003937 dimerization interface [polypeptide binding]; other site 652103003938 active site 652103003939 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 652103003940 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103003941 FAD binding site [chemical binding]; other site 652103003942 substrate binding pocket [chemical binding]; other site 652103003943 catalytic base [active] 652103003944 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 652103003945 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103003946 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103003947 dimer interface [polypeptide binding]; other site 652103003948 putative CheW interface [polypeptide binding]; other site 652103003949 hypothetical protein; Validated; Region: PRK00110 652103003950 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 652103003951 active site 652103003952 putative DNA-binding cleft [nucleotide binding]; other site 652103003953 dimer interface [polypeptide binding]; other site 652103003954 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 652103003955 RuvA N terminal domain; Region: RuvA_N; pfam01330 652103003956 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 652103003957 active site 652103003958 catalytic motif [active] 652103003959 Zn binding site [ion binding]; other site 652103003960 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 652103003961 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 652103003962 Walker A motif; other site 652103003963 ATP binding site [chemical binding]; other site 652103003964 Walker B motif; other site 652103003965 arginine finger; other site 652103003966 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 652103003967 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 652103003968 active site 652103003969 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 652103003970 OpgC protein; Region: OpgC_C; pfam10129 652103003971 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103003972 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 652103003973 SnoaL-like domain; Region: SnoaL_2; pfam12680 652103003974 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103003975 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103003976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 652103003977 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 652103003978 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103003979 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 652103003980 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 652103003981 classical (c) SDRs; Region: SDR_c; cd05233 652103003982 NAD(P) binding site [chemical binding]; other site 652103003983 active site 652103003984 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 652103003985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 652103003986 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103003987 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103003988 WHG domain; Region: WHG; pfam13305 652103003989 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 652103003990 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 652103003991 Uncharacterized conserved protein [Function unknown]; Region: COG2128 652103003992 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 652103003993 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103003994 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 652103003995 TolQ protein; Region: tolQ; TIGR02796 652103003996 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 652103003997 TolR protein; Region: tolR; TIGR02801 652103003998 translocation protein TolB; Provisional; Region: tolB; PRK05137 652103003999 TolB amino-terminal domain; Region: TolB_N; pfam04052 652103004000 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 652103004001 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 652103004002 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 652103004003 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 652103004004 PAS fold; Region: PAS_7; pfam12860 652103004005 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103004006 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103004007 metal binding site [ion binding]; metal-binding site 652103004008 active site 652103004009 I-site; other site 652103004010 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 652103004011 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 652103004012 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 652103004013 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103004014 ligand binding site [chemical binding]; other site 652103004015 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 652103004016 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 652103004017 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 652103004018 Ligand Binding Site [chemical binding]; other site 652103004019 FtsH Extracellular; Region: FtsH_ext; pfam06480 652103004020 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 652103004021 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 652103004022 Walker A motif; other site 652103004023 ATP binding site [chemical binding]; other site 652103004024 Walker B motif; other site 652103004025 arginine finger; other site 652103004026 Peptidase family M41; Region: Peptidase_M41; pfam01434 652103004027 hypothetical protein; Provisional; Region: PRK14851 652103004028 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 652103004029 dimer interface [polypeptide binding]; other site 652103004030 AzlC protein; Region: AzlC; cl00570 652103004031 Predicted membrane protein [Function unknown]; Region: COG4541 652103004032 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 652103004033 FAD binding domain; Region: FAD_binding_4; pfam01565 652103004034 FAD binding domain; Region: FAD_binding_4; pfam01565 652103004035 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 652103004036 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 652103004037 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 652103004038 Cysteine-rich domain; Region: CCG; pfam02754 652103004039 Cysteine-rich domain; Region: CCG; pfam02754 652103004040 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 652103004041 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 652103004042 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 652103004043 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 652103004044 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 652103004045 chaperonin GroEL; Reviewed; Region: groEL; PRK12852 652103004046 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 652103004047 ring oligomerisation interface [polypeptide binding]; other site 652103004048 ATP/Mg binding site [chemical binding]; other site 652103004049 stacking interactions; other site 652103004050 hinge regions; other site 652103004051 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 652103004052 oligomerisation interface [polypeptide binding]; other site 652103004053 mobile loop; other site 652103004054 roof hairpin; other site 652103004055 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103004056 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103004057 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 652103004058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103004059 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103004060 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 652103004061 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 652103004062 putative active site [active] 652103004063 YdjC motif; other site 652103004064 Mg binding site [ion binding]; other site 652103004065 putative homodimer interface [polypeptide binding]; other site 652103004066 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 652103004067 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 652103004068 Ligand binding site; other site 652103004069 Putative Catalytic site; other site 652103004070 DXD motif; other site 652103004071 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 652103004072 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 652103004073 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 652103004074 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 652103004075 motif 1; other site 652103004076 dimer interface [polypeptide binding]; other site 652103004077 active site 652103004078 motif 2; other site 652103004079 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 652103004080 motif 3; other site 652103004081 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 652103004082 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 652103004083 UbiA prenyltransferase family; Region: UbiA; pfam01040 652103004084 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 652103004085 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 652103004086 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 652103004087 active site 652103004088 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 652103004089 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 652103004090 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 652103004091 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 652103004092 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 652103004093 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 652103004094 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 652103004095 generic binding surface II; other site 652103004096 generic binding surface I; other site 652103004097 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 652103004098 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 652103004099 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 652103004100 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 652103004101 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 652103004102 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 652103004103 nucleoside/Zn binding site; other site 652103004104 dimer interface [polypeptide binding]; other site 652103004105 catalytic motif [active] 652103004106 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 652103004107 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 652103004108 RNA binding surface [nucleotide binding]; other site 652103004109 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 652103004110 active site 652103004111 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 652103004112 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 652103004113 S-adenosylmethionine binding site [chemical binding]; other site 652103004114 HemK family putative methylases; Region: hemK_fam; TIGR00536 652103004115 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 652103004116 S-adenosylmethionine binding site [chemical binding]; other site 652103004117 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 652103004118 MoaE homodimer interface [polypeptide binding]; other site 652103004119 MoaD interaction [polypeptide binding]; other site 652103004120 active site residues [active] 652103004121 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 652103004122 MoaE interaction surface [polypeptide binding]; other site 652103004123 MoeB interaction surface [polypeptide binding]; other site 652103004124 thiocarboxylated glycine; other site 652103004125 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 652103004126 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 652103004127 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 652103004128 GIY-YIG motif/motif A; other site 652103004129 active site 652103004130 catalytic site [active] 652103004131 putative DNA binding site [nucleotide binding]; other site 652103004132 metal binding site [ion binding]; metal-binding site 652103004133 UvrB/uvrC motif; Region: UVR; pfam02151 652103004134 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 652103004135 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103004136 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 652103004137 DNA-binding site [nucleotide binding]; DNA binding site 652103004138 RNA-binding motif; other site 652103004139 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 652103004140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103004141 Response regulator receiver domain; Region: Response_reg; pfam00072 652103004142 active site 652103004143 phosphorylation site [posttranslational modification] 652103004144 intermolecular recognition site; other site 652103004145 dimerization interface [polypeptide binding]; other site 652103004146 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 652103004147 active site 1 [active] 652103004148 active site 2 [active] 652103004149 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 652103004150 active site 1 [active] 652103004151 dimer interface [polypeptide binding]; other site 652103004152 hexamer interface [polypeptide binding]; other site 652103004153 active site 2 [active] 652103004154 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 652103004155 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 652103004156 dimer interface [polypeptide binding]; other site 652103004157 motif 1; other site 652103004158 motif 2; other site 652103004159 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 652103004160 active site 652103004161 motif 3; other site 652103004162 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 652103004163 anticodon binding site; other site 652103004164 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 652103004165 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 652103004166 inhibitor-cofactor binding pocket; inhibition site 652103004167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103004168 catalytic residue [active] 652103004169 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 652103004170 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 652103004171 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 652103004172 active site 652103004173 motif I; other site 652103004174 motif II; other site 652103004175 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 652103004176 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 652103004177 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 652103004178 Aerotolerance regulator N-terminal; Region: BatA; cl06567 652103004179 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 652103004180 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 652103004181 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 652103004182 Protein of unknown function DUF58; Region: DUF58; pfam01882 652103004183 MoxR-like ATPases [General function prediction only]; Region: COG0714 652103004184 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 652103004185 Walker A motif; other site 652103004186 ATP binding site [chemical binding]; other site 652103004187 Walker B motif; other site 652103004188 arginine finger; other site 652103004189 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 652103004190 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 652103004191 putative active site [active] 652103004192 putative CoA binding site [chemical binding]; other site 652103004193 nudix motif; other site 652103004194 metal binding site [ion binding]; metal-binding site 652103004195 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 652103004196 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 652103004197 active site 652103004198 NTP binding site [chemical binding]; other site 652103004199 metal binding triad [ion binding]; metal-binding site 652103004200 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 652103004201 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 652103004202 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 652103004203 FeS/SAM binding site; other site 652103004204 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 652103004205 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 652103004206 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 652103004207 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 652103004208 [2Fe-2S] cluster binding site [ion binding]; other site 652103004209 cytochrome b; Provisional; Region: CYTB; MTH00191 652103004210 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 652103004211 Qi binding site; other site 652103004212 intrachain domain interface; other site 652103004213 interchain domain interface [polypeptide binding]; other site 652103004214 heme bH binding site [chemical binding]; other site 652103004215 heme bL binding site [chemical binding]; other site 652103004216 Qo binding site; other site 652103004217 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 652103004218 interchain domain interface [polypeptide binding]; other site 652103004219 intrachain domain interface; other site 652103004220 Qi binding site; other site 652103004221 Qo binding site; other site 652103004222 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 652103004223 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 652103004224 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 652103004225 classical (c) SDRs; Region: SDR_c; cd05233 652103004226 NAD(P) binding site [chemical binding]; other site 652103004227 active site 652103004228 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 652103004229 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 652103004230 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 652103004231 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 652103004232 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 652103004233 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 652103004234 HSP70 interaction site [polypeptide binding]; other site 652103004235 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 652103004236 substrate binding site [polypeptide binding]; other site 652103004237 dimer interface [polypeptide binding]; other site 652103004238 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 652103004239 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 652103004240 NAD binding site [chemical binding]; other site 652103004241 homotetramer interface [polypeptide binding]; other site 652103004242 homodimer interface [polypeptide binding]; other site 652103004243 substrate binding site [chemical binding]; other site 652103004244 active site 652103004245 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 652103004246 catalytic core [active] 652103004247 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 652103004248 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 652103004249 Tetramer interface [polypeptide binding]; other site 652103004250 active site 652103004251 FMN-binding site [chemical binding]; other site 652103004252 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 652103004253 cyclase homology domain; Region: CHD; cd07302 652103004254 nucleotidyl binding site; other site 652103004255 metal binding site [ion binding]; metal-binding site 652103004256 dimer interface [polypeptide binding]; other site 652103004257 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 652103004258 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 652103004259 metal ion-dependent adhesion site (MIDAS); other site 652103004260 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 652103004261 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 652103004262 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 652103004263 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 652103004264 AAA domain; Region: AAA_14; pfam13173 652103004265 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103004266 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 652103004267 Uncharacterized conserved protein [Function unknown]; Region: COG5476 652103004268 MlrC C-terminus; Region: MlrC_C; pfam07171 652103004269 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 652103004270 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103004271 Walker A/P-loop; other site 652103004272 ATP binding site [chemical binding]; other site 652103004273 Q-loop/lid; other site 652103004274 ABC transporter signature motif; other site 652103004275 Walker B; other site 652103004276 D-loop; other site 652103004277 H-loop/switch region; other site 652103004278 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103004279 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103004280 Walker A/P-loop; other site 652103004281 ATP binding site [chemical binding]; other site 652103004282 Q-loop/lid; other site 652103004283 ABC transporter signature motif; other site 652103004284 Walker B; other site 652103004285 D-loop; other site 652103004286 H-loop/switch region; other site 652103004287 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103004288 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 652103004289 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 652103004290 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 652103004291 dimer interface [polypeptide binding]; other site 652103004292 conserved gate region; other site 652103004293 putative PBP binding loops; other site 652103004294 ABC-ATPase subunit interface; other site 652103004295 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103004296 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 652103004297 dimer interface [polypeptide binding]; other site 652103004298 conserved gate region; other site 652103004299 putative PBP binding loops; other site 652103004300 ABC-ATPase subunit interface; other site 652103004301 hypothetical protein; Provisional; Region: PRK07338 652103004302 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 652103004303 metal binding site [ion binding]; metal-binding site 652103004304 dimer interface [polypeptide binding]; other site 652103004305 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 652103004306 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 652103004307 FOG: CBS domain [General function prediction only]; Region: COG0517 652103004308 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 652103004309 CHAD domain; Region: CHAD; pfam05235 652103004310 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 652103004311 dimer interface [polypeptide binding]; other site 652103004312 PYR/PP interface [polypeptide binding]; other site 652103004313 TPP binding site [chemical binding]; other site 652103004314 substrate binding site [chemical binding]; other site 652103004315 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 652103004316 TPP-binding site; other site 652103004317 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 652103004318 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 652103004319 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 652103004320 active site 652103004321 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 652103004322 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 652103004323 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 652103004324 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 652103004325 putative ion selectivity filter; other site 652103004326 putative pore gating glutamate residue; other site 652103004327 putative H+/Cl- coupling transport residue; other site 652103004328 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 652103004329 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 652103004330 active site 652103004331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103004332 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 652103004333 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 652103004334 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 652103004335 oxyanion hole [active] 652103004336 Predicted integral membrane protein [Function unknown]; Region: COG0392 652103004337 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 652103004338 dimerization interface [polypeptide binding]; other site 652103004339 metal binding site [ion binding]; metal-binding site 652103004340 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103004341 Ligand Binding Site [chemical binding]; other site 652103004342 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 652103004343 catalytic core [active] 652103004344 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 652103004345 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 652103004346 methionine sulfoxide reductase B; Provisional; Region: PRK00222 652103004347 SelR domain; Region: SelR; pfam01641 652103004348 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 652103004349 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 652103004350 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 652103004351 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 652103004352 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 652103004353 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 652103004354 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103004355 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 652103004356 flagellin; Provisional; Region: PRK14708 652103004357 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103004358 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103004359 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103004360 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 652103004361 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 652103004362 dimer interface [polypeptide binding]; other site 652103004363 active site 652103004364 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 652103004365 extended (e) SDRs; Region: SDR_e; cd08946 652103004366 NAD(P) binding site [chemical binding]; other site 652103004367 active site 652103004368 substrate binding site [chemical binding]; other site 652103004369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004370 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 652103004371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004372 NAD(P) binding site [chemical binding]; other site 652103004373 active site 652103004374 Methyltransferase domain; Region: Methyltransf_31; pfam13847 652103004375 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 652103004376 S-adenosylmethionine binding site [chemical binding]; other site 652103004377 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 652103004378 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 652103004379 tetramer interface [polypeptide binding]; other site 652103004380 TPP-binding site [chemical binding]; other site 652103004381 heterodimer interface [polypeptide binding]; other site 652103004382 phosphorylation loop region [posttranslational modification] 652103004383 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 652103004384 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 652103004385 alpha subunit interface [polypeptide binding]; other site 652103004386 TPP binding site [chemical binding]; other site 652103004387 heterodimer interface [polypeptide binding]; other site 652103004388 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103004389 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 652103004390 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 652103004391 NAD binding site [chemical binding]; other site 652103004392 catalytic Zn binding site [ion binding]; other site 652103004393 substrate binding site [chemical binding]; other site 652103004394 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103004395 active site 652103004396 nucleotide binding site [chemical binding]; other site 652103004397 HIGH motif; other site 652103004398 KMSKS motif; other site 652103004399 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 652103004400 putative ribose interaction site [chemical binding]; other site 652103004401 putative ADP binding site [chemical binding]; other site 652103004402 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 652103004403 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 652103004404 active site 652103004405 Substrate binding site; other site 652103004406 Mg++ binding site; other site 652103004407 classical (c) SDRs; Region: SDR_c; cd05233 652103004408 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 652103004409 NAD(P) binding site [chemical binding]; other site 652103004410 active site 652103004411 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 652103004412 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103004413 PYR/PP interface [polypeptide binding]; other site 652103004414 dimer interface [polypeptide binding]; other site 652103004415 TPP binding site [chemical binding]; other site 652103004416 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 652103004417 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 652103004418 TPP-binding site [chemical binding]; other site 652103004419 TPR repeat; Region: TPR_11; pfam13414 652103004420 Tetratricopeptide repeat; Region: TPR_2; pfam07719 652103004421 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 652103004422 binding surface 652103004423 TPR motif; other site 652103004424 TPR repeat; Region: TPR_11; pfam13414 652103004425 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 652103004426 binding surface 652103004427 TPR motif; other site 652103004428 TPR repeat; Region: TPR_11; pfam13414 652103004429 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 652103004430 binding surface 652103004431 TPR motif; other site 652103004432 flagellin; Provisional; Region: PRK14708 652103004433 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103004434 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103004435 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103004436 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK12791 652103004437 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 652103004438 chemotactic signal-response protein CheL; Provisional; Region: PRK12790 652103004439 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 652103004440 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 652103004441 flagellar assembly regulator FliX; Reviewed; Region: fliX; PRK12787 652103004442 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 652103004443 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 652103004444 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103004445 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103004446 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103004447 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103004448 Protein export membrane protein; Region: SecD_SecF; cl14618 652103004449 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 652103004450 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 652103004451 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 652103004452 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 652103004453 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 652103004454 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 652103004455 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 652103004456 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 652103004457 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 652103004458 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 652103004459 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK12785 652103004460 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 652103004461 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 652103004462 Uncharacterized conserved protein [Function unknown]; Region: COG3334 652103004463 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 652103004464 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 652103004465 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 652103004466 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 652103004467 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 652103004468 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 652103004469 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00732 652103004470 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 652103004471 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 652103004472 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 652103004473 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 652103004474 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 652103004475 PAS domain; Region: PAS_9; pfam13426 652103004476 putative active site [active] 652103004477 heme pocket [chemical binding]; other site 652103004478 PAS fold; Region: PAS_4; pfam08448 652103004479 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103004480 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 652103004481 dimer interface [polypeptide binding]; other site 652103004482 phosphorylation site [posttranslational modification] 652103004483 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 652103004484 ATP binding site [chemical binding]; other site 652103004485 Mg2+ binding site [ion binding]; other site 652103004486 G-X-G motif; other site 652103004487 Response regulator receiver domain; Region: Response_reg; pfam00072 652103004488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103004489 active site 652103004490 phosphorylation site [posttranslational modification] 652103004491 intermolecular recognition site; other site 652103004492 dimerization interface [polypeptide binding]; other site 652103004493 FRG domain; Region: FRG; pfam08867 652103004494 Tim44-like domain; Region: Tim44; pfam04280 652103004495 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 652103004496 glutathione s-transferase; Provisional; Region: PTZ00057 652103004497 GSH binding site (G-site) [chemical binding]; other site 652103004498 C-terminal domain interface [polypeptide binding]; other site 652103004499 dimer interface [polypeptide binding]; other site 652103004500 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 652103004501 dimer interface [polypeptide binding]; other site 652103004502 N-terminal domain interface [polypeptide binding]; other site 652103004503 substrate binding pocket (H-site) [chemical binding]; other site 652103004504 Uncharacterized conserved protein [Function unknown]; Region: COG3791 652103004505 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 652103004506 fumarate hydratase; Provisional; Region: PRK15389 652103004507 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 652103004508 Fumarase C-terminus; Region: Fumerase_C; pfam05683 652103004509 Intracellular septation protein A; Region: IspA; cl01098 652103004510 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 652103004511 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 652103004512 sequence-specific DNA binding site [nucleotide binding]; other site 652103004513 salt bridge; other site 652103004514 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 652103004515 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 652103004516 catalytic residues [active] 652103004517 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 652103004518 Caspase domain; Region: Peptidase_C14; pfam00656 652103004519 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103004520 CoenzymeA binding site [chemical binding]; other site 652103004521 subunit interaction site [polypeptide binding]; other site 652103004522 PHB binding site; other site 652103004523 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103004524 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 652103004525 ligand binding site [chemical binding]; other site 652103004526 flexible hinge region; other site 652103004527 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 652103004528 non-specific DNA interactions [nucleotide binding]; other site 652103004529 DNA binding site [nucleotide binding] 652103004530 sequence specific DNA binding site [nucleotide binding]; other site 652103004531 putative cAMP binding site [chemical binding]; other site 652103004532 exosome complex RNA-binding protein Csl4; Provisional; Region: PRK09521 652103004533 recombinase A; Provisional; Region: recA; PRK09354 652103004534 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 652103004535 hexamer interface [polypeptide binding]; other site 652103004536 Walker A motif; other site 652103004537 ATP binding site [chemical binding]; other site 652103004538 Walker B motif; other site 652103004539 glycine dehydrogenase; Provisional; Region: PRK05367 652103004540 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 652103004541 tetramer interface [polypeptide binding]; other site 652103004542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103004543 catalytic residue [active] 652103004544 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 652103004545 tetramer interface [polypeptide binding]; other site 652103004546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103004547 catalytic residue [active] 652103004548 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 652103004549 lipoyl attachment site [posttranslational modification]; other site 652103004550 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 652103004551 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 652103004552 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 652103004553 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 652103004554 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 652103004555 motif 1; other site 652103004556 active site 652103004557 motif 2; other site 652103004558 motif 3; other site 652103004559 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 652103004560 DHHA1 domain; Region: DHHA1; pfam02272 652103004561 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103004562 Coenzyme A binding pocket [chemical binding]; other site 652103004563 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 652103004564 TrkA-N domain; Region: TrkA_N; pfam02254 652103004565 putative cation:proton antiport protein; Provisional; Region: PRK10669 652103004566 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 652103004567 TrkA-N domain; Region: TrkA_N; pfam02254 652103004568 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103004569 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 652103004570 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 652103004571 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103004572 N-terminal plug; other site 652103004573 ligand-binding site [chemical binding]; other site 652103004574 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103004575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103004576 hypothetical protein; Provisional; Region: PRK02237 652103004577 isocitrate dehydrogenase; Validated; Region: PRK08299 652103004578 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 652103004579 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 652103004580 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 652103004581 putative active site [active] 652103004582 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 652103004583 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 652103004584 active site 652103004585 SUMO-1 interface [polypeptide binding]; other site 652103004586 transcription elongation factor regulatory protein; Validated; Region: PRK06342 652103004587 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 652103004588 LysE type translocator; Region: LysE; cl00565 652103004589 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 652103004590 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 652103004591 tetramer interface [polypeptide binding]; other site 652103004592 active site 652103004593 Mg2+/Mn2+ binding site [ion binding]; other site 652103004594 Virulence protein [General function prediction only]; Region: COG3943 652103004595 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 652103004596 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 652103004597 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 652103004598 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 652103004599 ATP binding site [chemical binding]; other site 652103004600 active site 652103004601 substrate binding site [chemical binding]; other site 652103004602 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 652103004603 ORF6C domain; Region: ORF6C; pfam10552 652103004604 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 652103004605 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 652103004606 putative active site [active] 652103004607 catalytic triad [active] 652103004608 adenylosuccinate lyase; Provisional; Region: PRK07492 652103004609 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 652103004610 tetramer interface [polypeptide binding]; other site 652103004611 active site 652103004612 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 652103004613 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 652103004614 substrate binding site [chemical binding]; other site 652103004615 hexamer interface [polypeptide binding]; other site 652103004616 metal binding site [ion binding]; metal-binding site 652103004617 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 652103004618 EF-hand domain pair; Region: EF_hand_5; pfam13499 652103004619 Ca2+ binding site [ion binding]; other site 652103004620 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 652103004621 putative active site pocket [active] 652103004622 cleavage site 652103004623 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 652103004624 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 652103004625 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 652103004626 GIY-YIG motif/motif A; other site 652103004627 putative active site [active] 652103004628 putative metal binding site [ion binding]; other site 652103004629 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 652103004630 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 652103004631 dimerization interface [polypeptide binding]; other site 652103004632 ligand binding site [chemical binding]; other site 652103004633 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103004634 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103004635 Walker A/P-loop; other site 652103004636 ATP binding site [chemical binding]; other site 652103004637 Q-loop/lid; other site 652103004638 ABC transporter signature motif; other site 652103004639 Walker B; other site 652103004640 D-loop; other site 652103004641 H-loop/switch region; other site 652103004642 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103004643 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103004644 Walker A/P-loop; other site 652103004645 ATP binding site [chemical binding]; other site 652103004646 Q-loop/lid; other site 652103004647 ABC transporter signature motif; other site 652103004648 Walker B; other site 652103004649 D-loop; other site 652103004650 H-loop/switch region; other site 652103004651 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 652103004652 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 652103004653 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 652103004654 TM-ABC transporter signature motif; other site 652103004655 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103004656 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 652103004657 TM-ABC transporter signature motif; other site 652103004658 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 652103004659 putative hydrophobic ligand binding site [chemical binding]; other site 652103004660 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 652103004661 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 652103004662 catalytic loop [active] 652103004663 iron binding site [ion binding]; other site 652103004664 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 652103004665 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 652103004666 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 652103004667 MoxR-like ATPases [General function prediction only]; Region: COG0714 652103004668 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 652103004669 Walker A motif; other site 652103004670 ATP binding site [chemical binding]; other site 652103004671 Walker B motif; other site 652103004672 arginine finger; other site 652103004673 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 652103004674 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 652103004675 metal ion-dependent adhesion site (MIDAS); other site 652103004676 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 652103004677 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 652103004678 XdhC Rossmann domain; Region: XdhC_C; pfam13478 652103004679 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 652103004680 putative MPT binding site; other site 652103004681 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 652103004682 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 652103004683 Ligand binding site; other site 652103004684 metal-binding site 652103004685 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103004686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103004687 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 652103004688 dimerization interface [polypeptide binding]; other site 652103004689 enoyl-CoA hydratase; Provisional; Region: PRK05862 652103004690 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 652103004691 substrate binding site [chemical binding]; other site 652103004692 oxyanion hole (OAH) forming residues; other site 652103004693 trimer interface [polypeptide binding]; other site 652103004694 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 652103004695 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103004696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103004697 metal binding site [ion binding]; metal-binding site 652103004698 active site 652103004699 I-site; other site 652103004700 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103004701 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103004702 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103004703 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 652103004704 E3 interaction surface; other site 652103004705 lipoyl attachment site [posttranslational modification]; other site 652103004706 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 652103004707 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 652103004708 Walker A/P-loop; other site 652103004709 ATP binding site [chemical binding]; other site 652103004710 Q-loop/lid; other site 652103004711 ABC transporter signature motif; other site 652103004712 Walker B; other site 652103004713 D-loop; other site 652103004714 H-loop/switch region; other site 652103004715 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 652103004716 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 652103004717 Protein of unknown function DUF72; Region: DUF72; pfam01904 652103004718 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 652103004719 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 652103004720 Ligand binding site; other site 652103004721 Putative Catalytic site; other site 652103004722 DXD motif; other site 652103004723 Predicted membrane protein [Function unknown]; Region: COG2246 652103004724 GtrA-like protein; Region: GtrA; pfam04138 652103004725 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 652103004726 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 652103004727 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103004728 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 652103004729 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 652103004730 substrate binding site [chemical binding]; other site 652103004731 ATP binding site [chemical binding]; other site 652103004732 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 652103004733 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103004734 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 652103004735 active site 652103004736 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103004737 hypothetical protein; Provisional; Region: PRK12472 652103004738 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 652103004739 Cytochrome P450; Region: p450; cl12078 652103004740 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103004741 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103004742 Protein of unknown function (DUF808); Region: DUF808; cl01002 652103004743 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103004744 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103004745 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103004746 multidrug efflux protein; Reviewed; Region: PRK09579 652103004747 Protein export membrane protein; Region: SecD_SecF; cl14618 652103004748 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 652103004749 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103004750 hydroxyglutarate oxidase; Provisional; Region: PRK11728 652103004751 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103004752 PGAP1-like protein; Region: PGAP1; pfam07819 652103004753 Phasin protein; Region: Phasin_2; cl11491 652103004754 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103004755 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103004756 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 652103004757 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 652103004758 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 652103004759 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 652103004760 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 652103004761 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 652103004762 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 652103004763 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 652103004764 FAD binding pocket [chemical binding]; other site 652103004765 FAD binding motif [chemical binding]; other site 652103004766 phosphate binding motif [ion binding]; other site 652103004767 beta-alpha-beta structure motif; other site 652103004768 NAD(p) ribose binding residues [chemical binding]; other site 652103004769 NAD binding pocket [chemical binding]; other site 652103004770 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 652103004771 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 652103004772 catalytic loop [active] 652103004773 iron binding site [ion binding]; other site 652103004774 hypothetical protein; Provisional; Region: PRK08266 652103004775 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103004776 PYR/PP interface [polypeptide binding]; other site 652103004777 dimer interface [polypeptide binding]; other site 652103004778 TPP binding site [chemical binding]; other site 652103004779 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 652103004780 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 652103004781 TPP-binding site [chemical binding]; other site 652103004782 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 652103004783 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 652103004784 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 652103004785 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 652103004786 tetramer interface [polypeptide binding]; other site 652103004787 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 652103004788 tetramer interface [polypeptide binding]; other site 652103004789 active site 652103004790 metal binding site [ion binding]; metal-binding site 652103004791 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 652103004792 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 652103004793 NAD binding site [chemical binding]; other site 652103004794 catalytic residues [active] 652103004795 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 652103004796 putative substrate binding pocket [chemical binding]; other site 652103004797 trimer interface [polypeptide binding]; other site 652103004798 MarR family; Region: MarR_2; cl17246 652103004799 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103004800 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 652103004801 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 652103004802 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 652103004803 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 652103004804 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 652103004805 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 652103004806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 652103004807 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 652103004808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 652103004809 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 652103004810 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 652103004811 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 652103004812 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 652103004813 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 652103004814 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 652103004815 dimerization interface [polypeptide binding]; other site 652103004816 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103004817 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103004818 dimer interface [polypeptide binding]; other site 652103004819 putative CheW interface [polypeptide binding]; other site 652103004820 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 652103004821 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 652103004822 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 652103004823 B12 binding site [chemical binding]; other site 652103004824 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 652103004825 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 652103004826 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 652103004827 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 652103004828 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 652103004829 active site lid residues [active] 652103004830 substrate binding pocket [chemical binding]; other site 652103004831 catalytic residues [active] 652103004832 substrate-Mg2+ binding site; other site 652103004833 aspartate-rich region 1; other site 652103004834 aspartate-rich region 2; other site 652103004835 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 652103004836 active site lid residues [active] 652103004837 substrate binding pocket [chemical binding]; other site 652103004838 catalytic residues [active] 652103004839 substrate-Mg2+ binding site; other site 652103004840 aspartate-rich region 1; other site 652103004841 aspartate-rich region 2; other site 652103004842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 652103004843 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 652103004844 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 652103004845 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 652103004846 Active site cavity [active] 652103004847 catalytic acid [active] 652103004848 hypothetical protein; Provisional; Region: PRK07077 652103004849 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 652103004850 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 652103004851 FeS/SAM binding site; other site 652103004852 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 652103004853 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 652103004854 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 652103004855 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 652103004856 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 652103004857 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 652103004858 inhibitor-cofactor binding pocket; inhibition site 652103004859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103004860 catalytic residue [active] 652103004861 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103004862 Ligand Binding Site [chemical binding]; other site 652103004863 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103004864 Ligand Binding Site [chemical binding]; other site 652103004865 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 652103004866 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 652103004867 oligomeric interface; other site 652103004868 putative active site [active] 652103004869 homodimer interface [polypeptide binding]; other site 652103004870 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 652103004871 HsdM N-terminal domain; Region: HsdM_N; pfam12161 652103004872 Methyltransferase domain; Region: Methyltransf_26; pfam13659 652103004873 choline dehydrogenase; Validated; Region: PRK02106 652103004874 lycopene cyclase; Region: lycopene_cycl; TIGR01789 652103004875 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 652103004876 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 652103004877 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 652103004878 metal binding site [ion binding]; metal-binding site 652103004879 putative dimer interface [polypeptide binding]; other site 652103004880 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103004881 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 652103004882 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 652103004883 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 652103004884 Cl binding site [ion binding]; other site 652103004885 oligomer interface [polypeptide binding]; other site 652103004886 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 652103004887 dimerization interface [polypeptide binding]; other site 652103004888 metal binding site [ion binding]; metal-binding site 652103004889 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_8; cd06343 652103004890 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103004891 putative ligand binding site [chemical binding]; other site 652103004892 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_8; cd06343 652103004893 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103004894 putative ligand binding site [chemical binding]; other site 652103004895 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_8; cd06343 652103004896 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103004897 putative ligand binding site [chemical binding]; other site 652103004898 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103004899 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 652103004900 TM-ABC transporter signature motif; other site 652103004901 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103004902 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 652103004903 TM-ABC transporter signature motif; other site 652103004904 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103004905 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103004906 Walker A/P-loop; other site 652103004907 ATP binding site [chemical binding]; other site 652103004908 Q-loop/lid; other site 652103004909 ABC transporter signature motif; other site 652103004910 Walker B; other site 652103004911 D-loop; other site 652103004912 H-loop/switch region; other site 652103004913 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103004914 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103004915 Walker A/P-loop; other site 652103004916 ATP binding site [chemical binding]; other site 652103004917 Q-loop/lid; other site 652103004918 ABC transporter signature motif; other site 652103004919 Walker B; other site 652103004920 D-loop; other site 652103004921 H-loop/switch region; other site 652103004922 Transcriptional regulator [Transcription]; Region: IclR; COG1414 652103004923 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 652103004924 Bacterial transcriptional regulator; Region: IclR; pfam01614 652103004925 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 652103004926 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 652103004927 substrate binding site [chemical binding]; other site 652103004928 oxyanion hole (OAH) forming residues; other site 652103004929 trimer interface [polypeptide binding]; other site 652103004930 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 652103004931 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 652103004932 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 652103004933 dicarboxylate--CoA ligase PimA; Region: pimA; TIGR03205 652103004934 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 652103004935 acyl-activating enzyme (AAE) consensus motif; other site 652103004936 putative AMP binding site [chemical binding]; other site 652103004937 putative active site [active] 652103004938 putative CoA binding site [chemical binding]; other site 652103004939 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 652103004940 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 652103004941 dimer interface [polypeptide binding]; other site 652103004942 active site 652103004943 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 652103004944 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103004945 active site 652103004946 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 652103004947 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103004948 active site 652103004949 short chain dehydrogenase; Provisional; Region: PRK07035 652103004950 classical (c) SDRs; Region: SDR_c; cd05233 652103004951 NAD(P) binding site [chemical binding]; other site 652103004952 active site 652103004953 sulfite reductase; Provisional; Region: PRK06214 652103004954 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 652103004955 FAD binding pocket [chemical binding]; other site 652103004956 FAD binding motif [chemical binding]; other site 652103004957 catalytic residues [active] 652103004958 NAD binding pocket [chemical binding]; other site 652103004959 phosphate binding motif [ion binding]; other site 652103004960 beta-alpha-beta structure motif; other site 652103004961 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09567 652103004962 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 652103004963 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 652103004964 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 652103004965 heme-binding site [chemical binding]; other site 652103004966 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 652103004967 heme-binding site [chemical binding]; other site 652103004968 NMT1-like family; Region: NMT1_2; pfam13379 652103004969 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103004970 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 652103004971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 652103004972 active site 652103004973 phosphorylation site [posttranslational modification] 652103004974 intermolecular recognition site; other site 652103004975 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 652103004976 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 652103004977 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 652103004978 N- and C-terminal domain interface [polypeptide binding]; other site 652103004979 active site 652103004980 MgATP binding site [chemical binding]; other site 652103004981 catalytic site [active] 652103004982 metal binding site [ion binding]; metal-binding site 652103004983 glycerol binding site [chemical binding]; other site 652103004984 homotetramer interface [polypeptide binding]; other site 652103004985 homodimer interface [polypeptide binding]; other site 652103004986 FBP binding site [chemical binding]; other site 652103004987 protein IIAGlc interface [polypeptide binding]; other site 652103004988 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 652103004989 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 652103004990 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 652103004991 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103004992 N-terminal domain interface [polypeptide binding]; other site 652103004993 dimer interface [polypeptide binding]; other site 652103004994 substrate binding pocket (H-site) [chemical binding]; other site 652103004995 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 652103004996 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 652103004997 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 652103004998 substrate binding pocket [chemical binding]; other site 652103004999 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 652103005000 B12 binding site [chemical binding]; other site 652103005001 cobalt ligand [ion binding]; other site 652103005002 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 652103005003 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 652103005004 putative active site [active] 652103005005 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 652103005006 FAD binding site [chemical binding]; other site 652103005007 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 652103005008 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 652103005009 prephenate dehydratase; Provisional; Region: PRK11899 652103005010 Prephenate dehydratase; Region: PDT; pfam00800 652103005011 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 652103005012 putative L-Phe binding site [chemical binding]; other site 652103005013 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 652103005014 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 652103005015 Ligand binding site; other site 652103005016 oligomer interface; other site 652103005017 Cytochrome c2 [Energy production and conversion]; Region: COG3474 652103005018 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 652103005019 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 652103005020 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 652103005021 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 652103005022 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 652103005023 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 652103005024 dimer interface [polypeptide binding]; other site 652103005025 conserved gate region; other site 652103005026 putative PBP binding loops; other site 652103005027 ABC-ATPase subunit interface; other site 652103005028 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 652103005029 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 652103005030 ABC-ATPase subunit interface; other site 652103005031 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 652103005032 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103005033 Walker A/P-loop; other site 652103005034 ATP binding site [chemical binding]; other site 652103005035 Q-loop/lid; other site 652103005036 ABC transporter signature motif; other site 652103005037 Walker B; other site 652103005038 D-loop; other site 652103005039 H-loop/switch region; other site 652103005040 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103005041 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103005042 Walker A/P-loop; other site 652103005043 ATP binding site [chemical binding]; other site 652103005044 Q-loop/lid; other site 652103005045 ABC transporter signature motif; other site 652103005046 Walker B; other site 652103005047 D-loop; other site 652103005048 H-loop/switch region; other site 652103005049 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103005050 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 652103005051 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 652103005052 dimer interface [polypeptide binding]; other site 652103005053 active site 652103005054 ADP-ribose binding site [chemical binding]; other site 652103005055 nudix motif; other site 652103005056 metal binding site [ion binding]; metal-binding site 652103005057 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 652103005058 NlpC/P60 family; Region: NLPC_P60; pfam00877 652103005059 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 652103005060 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 652103005061 interface (dimer of trimers) [polypeptide binding]; other site 652103005062 Substrate-binding/catalytic site; other site 652103005063 Zn-binding sites [ion binding]; other site 652103005064 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 652103005065 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 652103005066 binding surface 652103005067 TPR motif; other site 652103005068 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 652103005069 TPR motif; other site 652103005070 binding surface 652103005071 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 652103005072 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 652103005073 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 652103005074 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 652103005075 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 652103005076 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 652103005077 ATP binding site [chemical binding]; other site 652103005078 Walker A motif; other site 652103005079 hexamer interface [polypeptide binding]; other site 652103005080 Walker B motif; other site 652103005081 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 652103005082 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 652103005083 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 652103005084 Type IV pili component [Cell motility and secretion]; Region: COG5461 652103005085 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 652103005086 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 652103005087 BON domain; Region: BON; pfam04972 652103005088 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 652103005089 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 652103005090 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 652103005091 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 652103005092 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 652103005093 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 652103005094 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 652103005095 TadE-like protein; Region: TadE; pfam07811 652103005096 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 652103005097 TadE-like protein; Region: TadE; pfam07811 652103005098 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 652103005099 DNA-binding site [nucleotide binding]; DNA binding site 652103005100 RNA-binding motif; other site 652103005101 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 652103005102 rRNA binding site [nucleotide binding]; other site 652103005103 predicted 30S ribosome binding site; other site 652103005104 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 652103005105 DEAD-like helicases superfamily; Region: DEXDc; smart00487 652103005106 ATP binding site [chemical binding]; other site 652103005107 Mg++ binding site [ion binding]; other site 652103005108 motif III; other site 652103005109 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 652103005110 nucleotide binding region [chemical binding]; other site 652103005111 ATP-binding site [chemical binding]; other site 652103005112 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103005113 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 652103005114 putative ligand binding site [chemical binding]; other site 652103005115 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 652103005116 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103005117 TM-ABC transporter signature motif; other site 652103005118 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103005119 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 652103005120 TM-ABC transporter signature motif; other site 652103005121 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 652103005122 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103005123 Walker A/P-loop; other site 652103005124 ATP binding site [chemical binding]; other site 652103005125 Q-loop/lid; other site 652103005126 ABC transporter signature motif; other site 652103005127 Walker B; other site 652103005128 D-loop; other site 652103005129 H-loop/switch region; other site 652103005130 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 652103005131 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103005132 Walker A/P-loop; other site 652103005133 ATP binding site [chemical binding]; other site 652103005134 Q-loop/lid; other site 652103005135 ABC transporter signature motif; other site 652103005136 Walker B; other site 652103005137 D-loop; other site 652103005138 H-loop/switch region; other site 652103005139 UreD urease accessory protein; Region: UreD; pfam01774 652103005140 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 652103005141 alpha-gamma subunit interface [polypeptide binding]; other site 652103005142 beta-gamma subunit interface [polypeptide binding]; other site 652103005143 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 652103005144 gamma-beta subunit interface [polypeptide binding]; other site 652103005145 alpha-beta subunit interface [polypeptide binding]; other site 652103005146 urease subunit alpha; Reviewed; Region: ureC; PRK13207 652103005147 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 652103005148 subunit interactions [polypeptide binding]; other site 652103005149 active site 652103005150 flap region; other site 652103005151 Uncharacterized conserved protein [Function unknown]; Region: COG1359 652103005152 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 652103005153 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 652103005154 dimer interface [polypeptide binding]; other site 652103005155 catalytic residues [active] 652103005156 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 652103005157 UreF; Region: UreF; pfam01730 652103005158 acyl-CoA synthetase; Validated; Region: PRK06188 652103005159 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103005160 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103005161 acyl-activating enzyme (AAE) consensus motif; other site 652103005162 acyl-activating enzyme (AAE) consensus motif; other site 652103005163 putative AMP binding site [chemical binding]; other site 652103005164 putative active site [active] 652103005165 putative CoA binding site [chemical binding]; other site 652103005166 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 652103005167 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 652103005168 FMN binding site [chemical binding]; other site 652103005169 substrate binding site [chemical binding]; other site 652103005170 putative catalytic residue [active] 652103005171 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 652103005172 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 652103005173 putative NAD(P) binding site [chemical binding]; other site 652103005174 catalytic Zn binding site [ion binding]; other site 652103005175 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 652103005176 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 652103005177 GTP binding site; other site 652103005178 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 652103005179 CPxP motif; other site 652103005180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103005181 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103005182 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103005183 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 652103005184 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 652103005185 putative DNA binding site [nucleotide binding]; other site 652103005186 putative homodimer interface [polypeptide binding]; other site 652103005187 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 652103005188 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 652103005189 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 652103005190 active site 652103005191 DNA binding site [nucleotide binding] 652103005192 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 652103005193 DNA binding site [nucleotide binding] 652103005194 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 652103005195 nucleotide binding site [chemical binding]; other site 652103005196 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 652103005197 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 652103005198 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 652103005199 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 652103005200 active site 652103005201 catalytic site [active] 652103005202 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 652103005203 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 652103005204 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 652103005205 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 652103005206 catalytic site [active] 652103005207 active site 652103005208 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 652103005209 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 652103005210 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 652103005211 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 652103005212 active site 652103005213 catalytic site [active] 652103005214 glycogen branching enzyme; Provisional; Region: PRK05402 652103005215 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 652103005216 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 652103005217 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 652103005218 active site 652103005219 catalytic site [active] 652103005220 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 652103005221 trehalose synthase; Region: treS_nterm; TIGR02456 652103005222 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 652103005223 active site 652103005224 catalytic site [active] 652103005225 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 652103005226 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 652103005227 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 652103005228 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 652103005229 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 652103005230 active site 652103005231 homodimer interface [polypeptide binding]; other site 652103005232 catalytic site [active] 652103005233 acceptor binding site [chemical binding]; other site 652103005234 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 652103005235 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 652103005236 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 652103005237 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 652103005238 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 652103005239 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 652103005240 active site 652103005241 motif I; other site 652103005242 motif II; other site 652103005243 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 652103005244 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 652103005245 AAA domain; Region: AAA_33; pfam13671 652103005246 ATP-binding site [chemical binding]; other site 652103005247 Gluconate-6-phosphate binding site [chemical binding]; other site 652103005248 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 652103005249 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 652103005250 putative active site [active] 652103005251 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 652103005252 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 652103005253 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 652103005254 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 652103005255 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 652103005256 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 652103005257 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 652103005258 putative active site [active] 652103005259 catalytic residue [active] 652103005260 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 652103005261 active site 652103005262 dimer interface [polypeptide binding]; other site 652103005263 SIS_TAL_PGI: Transaldolase (TAL)/ Phosphoglucose isomerase (PGI). This group represents the SIS (Sugar ISomerase) PGI domain, of a multifunctional protein (TAL-PGI ) having both TAL and PGI activities. TAL_PGI contains an N-terminal TAL domain and a...; Region: SIS_TAL_PGI; cd05798 652103005264 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 652103005265 amidase; Provisional; Region: PRK07487 652103005266 Amidase; Region: Amidase; cl11426 652103005267 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 652103005268 catalytic residues [active] 652103005269 dimer interface [polypeptide binding]; other site 652103005270 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 652103005271 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 652103005272 GIY-YIG motif/motif A; other site 652103005273 putative active site [active] 652103005274 putative metal binding site [ion binding]; other site 652103005275 Strictosidine synthase; Region: Str_synth; pfam03088 652103005276 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 652103005277 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 652103005278 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 652103005279 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 652103005280 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 652103005281 FMN-binding pocket [chemical binding]; other site 652103005282 flavin binding motif; other site 652103005283 phosphate binding motif [ion binding]; other site 652103005284 beta-alpha-beta structure motif; other site 652103005285 NAD binding pocket [chemical binding]; other site 652103005286 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 652103005287 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 652103005288 catalytic loop [active] 652103005289 iron binding site [ion binding]; other site 652103005290 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 652103005291 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103005292 DNA-binding site [nucleotide binding]; DNA binding site 652103005293 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 652103005294 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 652103005295 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 652103005296 iron-sulfur cluster [ion binding]; other site 652103005297 [2Fe-2S] cluster binding site [ion binding]; other site 652103005298 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 652103005299 alpha subunit interface [polypeptide binding]; other site 652103005300 active site 652103005301 substrate binding site [chemical binding]; other site 652103005302 Fe binding site [ion binding]; other site 652103005303 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 652103005304 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 652103005305 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 652103005306 Walker A motif; other site 652103005307 ATP binding site [chemical binding]; other site 652103005308 Walker B motif; other site 652103005309 arginine finger; other site 652103005310 PAS domain S-box; Region: sensory_box; TIGR00229 652103005311 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 652103005312 putative active site [active] 652103005313 heme pocket [chemical binding]; other site 652103005314 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103005315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103005316 metal binding site [ion binding]; metal-binding site 652103005317 active site 652103005318 I-site; other site 652103005319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 652103005320 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 652103005321 active site 652103005322 catalytic residue [active] 652103005323 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 652103005324 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 652103005325 active site residue [active] 652103005326 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 652103005327 active site residue [active] 652103005328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103005329 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103005330 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 652103005331 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 652103005332 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 652103005333 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103005334 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103005335 ABC transporter; Region: ABC_tran_2; pfam12848 652103005336 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103005337 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 652103005338 putative active site [active] 652103005339 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 652103005340 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 652103005341 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 652103005342 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 652103005343 S-adenosylmethionine binding site [chemical binding]; other site 652103005344 hypothetical protein; Provisional; Region: PRK05208 652103005345 lytic murein transglycosylase; Region: MltB_2; TIGR02283 652103005346 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 652103005347 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103005348 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 652103005349 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 652103005350 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 652103005351 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 652103005352 heme binding site [chemical binding]; other site 652103005353 ferroxidase pore; other site 652103005354 ferroxidase diiron center [ion binding]; other site 652103005355 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103005356 dimer interface [polypeptide binding]; other site 652103005357 putative CheW interface [polypeptide binding]; other site 652103005358 SOUL heme-binding protein; Region: SOUL; pfam04832 652103005359 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 652103005360 hypothetical protein; Provisional; Region: PRK07538 652103005361 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 652103005362 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 652103005363 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 652103005364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 652103005365 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 652103005366 Coenzyme A binding pocket [chemical binding]; other site 652103005367 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 652103005368 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 652103005369 ThiC-associated domain; Region: ThiC-associated; pfam13667 652103005370 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 652103005371 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 652103005372 thiamine phosphate binding site [chemical binding]; other site 652103005373 active site 652103005374 pyrophosphate binding site [ion binding]; other site 652103005375 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 652103005376 ThiS interaction site; other site 652103005377 putative active site [active] 652103005378 tetramer interface [polypeptide binding]; other site 652103005379 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 652103005380 thiS-thiF/thiG interaction site; other site 652103005381 hydroxyglutarate oxidase; Provisional; Region: PRK11728 652103005382 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 652103005383 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103005384 HAMP domain; Region: HAMP; pfam00672 652103005385 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 652103005386 dimer interface [polypeptide binding]; other site 652103005387 phosphorylation site [posttranslational modification] 652103005388 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 652103005389 ATP binding site [chemical binding]; other site 652103005390 Mg2+ binding site [ion binding]; other site 652103005391 G-X-G motif; other site 652103005392 osmolarity response regulator; Provisional; Region: ompR; PRK09468 652103005393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103005394 active site 652103005395 phosphorylation site [posttranslational modification] 652103005396 intermolecular recognition site; other site 652103005397 dimerization interface [polypeptide binding]; other site 652103005398 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 652103005399 DNA binding site [nucleotide binding] 652103005400 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 652103005401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103005402 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103005403 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 652103005404 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 652103005405 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103005406 catalytic residue [active] 652103005407 Methyltransferase domain; Region: Methyltransf_31; pfam13847 652103005408 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 652103005409 S-adenosylmethionine binding site [chemical binding]; other site 652103005410 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 652103005411 dimerization interface [polypeptide binding]; other site 652103005412 putative DNA binding site [nucleotide binding]; other site 652103005413 putative Zn2+ binding site [ion binding]; other site 652103005414 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 652103005415 dimerization interface [polypeptide binding]; other site 652103005416 putative DNA binding site [nucleotide binding]; other site 652103005417 putative Zn2+ binding site [ion binding]; other site 652103005418 Predicted permeases [General function prediction only]; Region: COG0701 652103005419 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 652103005420 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 652103005421 dimerization interface [polypeptide binding]; other site 652103005422 putative DNA binding site [nucleotide binding]; other site 652103005423 putative Zn2+ binding site [ion binding]; other site 652103005424 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 652103005425 Low molecular weight phosphatase family; Region: LMWPc; cd00115 652103005426 active site 652103005427 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 652103005428 ArsC family; Region: ArsC; pfam03960 652103005429 catalytic residues [active] 652103005430 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 652103005431 Sodium Bile acid symporter family; Region: SBF; cl17470 652103005432 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103005433 classical (c) SDRs; Region: SDR_c; cd05233 652103005434 NAD(P) binding site [chemical binding]; other site 652103005435 active site 652103005436 short chain dehydrogenase; Provisional; Region: PRK07326 652103005437 classical (c) SDR, subgroup 4; Region: SDR_c4; cd08929 652103005438 putative NAD(P) binding site [chemical binding]; other site 652103005439 homodimer interface [polypeptide binding]; other site 652103005440 active site 652103005441 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 652103005442 B12 binding site [chemical binding]; other site 652103005443 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 652103005444 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 652103005445 FeS/SAM binding site; other site 652103005446 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 652103005447 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 652103005448 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 652103005449 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 652103005450 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 652103005451 Autotransporter beta-domain; Region: Autotransporter; smart00869 652103005452 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 652103005453 dimerization interface [polypeptide binding]; other site 652103005454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103005455 dimer interface [polypeptide binding]; other site 652103005456 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103005457 putative CheW interface [polypeptide binding]; other site 652103005458 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 652103005459 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103005460 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103005461 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 652103005462 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 652103005463 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103005464 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103005465 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 652103005466 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103005467 putative substrate translocation pore; other site 652103005468 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103005469 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 652103005470 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 652103005471 amidase catalytic site [active] 652103005472 Zn binding residues [ion binding]; other site 652103005473 substrate binding site [chemical binding]; other site 652103005474 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 652103005475 MraW methylase family; Region: Methyltransf_5; cl17771 652103005476 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 652103005477 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 652103005478 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 652103005479 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 652103005480 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 652103005481 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 652103005482 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 652103005483 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 652103005484 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 652103005485 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 652103005486 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 652103005487 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 652103005488 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 652103005489 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 652103005490 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 652103005491 Mg++ binding site [ion binding]; other site 652103005492 putative catalytic motif [active] 652103005493 putative substrate binding site [chemical binding]; other site 652103005494 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 652103005495 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 652103005496 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 652103005497 cell division protein FtsW; Region: ftsW; TIGR02614 652103005498 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 652103005499 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 652103005500 active site 652103005501 homodimer interface [polypeptide binding]; other site 652103005502 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 652103005503 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 652103005504 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 652103005505 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 652103005506 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 652103005507 FAD binding domain; Region: FAD_binding_4; pfam01565 652103005508 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 652103005509 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 652103005510 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 652103005511 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 652103005512 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 652103005513 ATP-grasp domain; Region: ATP-grasp_4; cl17255 652103005514 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 652103005515 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 652103005516 Cell division protein FtsQ; Region: FtsQ; pfam03799 652103005517 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 652103005518 Cell division protein FtsA; Region: FtsA; smart00842 652103005519 Cell division protein FtsA; Region: FtsA; pfam14450 652103005520 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 652103005521 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 652103005522 nucleotide binding site [chemical binding]; other site 652103005523 SulA interaction site; other site 652103005524 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 652103005525 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 652103005526 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 652103005527 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 652103005528 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 652103005529 binding surface 652103005530 TPR motif; other site 652103005531 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 652103005532 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 652103005533 Walker A/P-loop; other site 652103005534 ATP binding site [chemical binding]; other site 652103005535 Q-loop/lid; other site 652103005536 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 652103005537 ABC transporter signature motif; other site 652103005538 Walker B; other site 652103005539 D-loop; other site 652103005540 H-loop/switch region; other site 652103005541 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 652103005542 GIY-YIG motif/motif A; other site 652103005543 putative active site [active] 652103005544 putative metal binding site [ion binding]; other site 652103005545 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 652103005546 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 652103005547 nucleotide binding pocket [chemical binding]; other site 652103005548 K-X-D-G motif; other site 652103005549 catalytic site [active] 652103005550 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 652103005551 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 652103005552 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 652103005553 Dimer interface [polypeptide binding]; other site 652103005554 BRCT sequence motif; other site 652103005555 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 652103005556 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103005557 putative substrate translocation pore; other site 652103005558 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 652103005559 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 652103005560 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 652103005561 active site 652103005562 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 652103005563 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 652103005564 S-adenosylmethionine binding site [chemical binding]; other site 652103005565 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 652103005566 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103005567 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 652103005568 S-adenosylmethionine binding site [chemical binding]; other site 652103005569 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103005570 ABC-2 type transporter; Region: ABC2_membrane; cl17235 652103005571 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 652103005572 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 652103005573 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 652103005574 Walker A/P-loop; other site 652103005575 ATP binding site [chemical binding]; other site 652103005576 Q-loop/lid; other site 652103005577 ABC transporter signature motif; other site 652103005578 Walker B; other site 652103005579 D-loop; other site 652103005580 H-loop/switch region; other site 652103005581 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 652103005582 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 652103005583 Part of AAA domain; Region: AAA_19; pfam13245 652103005584 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 652103005585 Family description; Region: UvrD_C_2; pfam13538 652103005586 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 652103005587 active site 652103005588 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 652103005589 FAD binding domain; Region: FAD_binding_4; pfam01565 652103005590 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 652103005591 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 652103005592 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 652103005593 fumarate hydratase; Reviewed; Region: fumC; PRK00485 652103005594 Class II fumarases; Region: Fumarase_classII; cd01362 652103005595 active site 652103005596 tetramer interface [polypeptide binding]; other site 652103005597 Stringent starvation protein B; Region: SspB; pfam04386 652103005598 Chromate transporter; Region: Chromate_transp; pfam02417 652103005599 Chromate transporter; Region: Chromate_transp; pfam02417 652103005600 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 652103005601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 652103005602 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 652103005603 thymidylate synthase; Reviewed; Region: thyA; PRK01827 652103005604 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 652103005605 dimerization interface [polypeptide binding]; other site 652103005606 active site 652103005607 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 652103005608 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 652103005609 folate binding site [chemical binding]; other site 652103005610 NADP+ binding site [chemical binding]; other site 652103005611 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 652103005612 HflK protein; Region: hflK; TIGR01933 652103005613 FtsH protease regulator HflC; Provisional; Region: PRK11029 652103005614 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 652103005615 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 652103005616 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 652103005617 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 652103005618 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103005619 protein binding site [polypeptide binding]; other site 652103005620 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103005621 protein binding site [polypeptide binding]; other site 652103005622 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 652103005623 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103005624 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 652103005625 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 652103005626 DctM-like transporters; Region: DctM; pfam06808 652103005627 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103005628 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103005629 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 652103005630 active site 652103005631 NTP binding site [chemical binding]; other site 652103005632 metal binding triad [ion binding]; metal-binding site 652103005633 antibiotic binding site [chemical binding]; other site 652103005634 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 652103005635 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 652103005636 Winged helix-turn helix; Region: HTH_29; pfam13551 652103005637 DNA-binding interface [nucleotide binding]; DNA binding site 652103005638 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103005639 Helix-turn-helix domain; Region: HTH_38; pfam13936 652103005640 Integrase core domain; Region: rve; pfam00665 652103005641 Integrase core domain; Region: rve_3; pfam13683 652103005642 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 652103005643 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 652103005644 DNA binding site [nucleotide binding] 652103005645 Int/Topo IB signature motif; other site 652103005646 active site 652103005647 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 652103005648 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 652103005649 catalytic residues [active] 652103005650 catalytic nucleophile [active] 652103005651 Recombinase; Region: Recombinase; pfam07508 652103005652 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 652103005653 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 652103005654 putative active site [active] 652103005655 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 652103005656 Protein export membrane protein; Region: SecD_SecF; cl14618 652103005657 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 652103005658 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103005659 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103005660 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 652103005661 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103005662 N-terminal plug; other site 652103005663 ligand-binding site [chemical binding]; other site 652103005664 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 652103005665 tonB-system energizer ExbB; Region: exbB; TIGR02797 652103005666 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 652103005667 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 652103005668 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 652103005669 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 652103005670 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103005671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005672 NAD(P) binding site [chemical binding]; other site 652103005673 active site 652103005674 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 652103005675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005676 NAD(P) binding site [chemical binding]; other site 652103005677 active site 652103005678 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 652103005679 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 652103005680 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 652103005681 Walker A/P-loop; other site 652103005682 ATP binding site [chemical binding]; other site 652103005683 Q-loop/lid; other site 652103005684 ABC transporter signature motif; other site 652103005685 Walker B; other site 652103005686 D-loop; other site 652103005687 H-loop/switch region; other site 652103005688 TOBE domain; Region: TOBE_2; pfam08402 652103005689 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 652103005690 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 652103005691 dimer interface [polypeptide binding]; other site 652103005692 conserved gate region; other site 652103005693 putative PBP binding loops; other site 652103005694 ABC-ATPase subunit interface; other site 652103005695 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 652103005696 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 652103005697 dimer interface [polypeptide binding]; other site 652103005698 conserved gate region; other site 652103005699 putative PBP binding loops; other site 652103005700 ABC-ATPase subunit interface; other site 652103005701 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 652103005702 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 652103005703 putative NAD(P) binding site [chemical binding]; other site 652103005704 active site 652103005705 putative substrate binding site [chemical binding]; other site 652103005706 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 652103005707 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 652103005708 active site 652103005709 AMP-binding enzyme; Region: AMP-binding; pfam00501 652103005710 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103005711 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103005712 acyl-activating enzyme (AAE) consensus motif; other site 652103005713 acyl-activating enzyme (AAE) consensus motif; other site 652103005714 active site 652103005715 AMP binding site [chemical binding]; other site 652103005716 CoA binding site [chemical binding]; other site 652103005717 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 652103005718 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103005719 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103005720 thiolase; Provisional; Region: PRK06158 652103005721 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 652103005722 active site 652103005723 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 652103005724 DUF35 OB-fold domain; Region: DUF35; pfam01796 652103005725 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 652103005726 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 652103005727 DctM-like transporters; Region: DctM; pfam06808 652103005728 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 652103005729 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 652103005730 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 652103005731 carboxyltransferase (CT) interaction site; other site 652103005732 biotinylation site [posttranslational modification]; other site 652103005733 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 652103005734 Transcriptional regulator [Transcription]; Region: IclR; COG1414 652103005735 Bacterial transcriptional regulator; Region: IclR; pfam01614 652103005736 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 652103005737 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 652103005738 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 652103005739 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103005740 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 652103005741 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 652103005742 substrate binding site [chemical binding]; other site 652103005743 oxyanion hole (OAH) forming residues; other site 652103005744 trimer interface [polypeptide binding]; other site 652103005745 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103005746 CoenzymeA binding site [chemical binding]; other site 652103005747 subunit interaction site [polypeptide binding]; other site 652103005748 PHB binding site; other site 652103005749 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103005750 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103005751 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 652103005752 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 652103005753 tetrameric interface [polypeptide binding]; other site 652103005754 NAD binding site [chemical binding]; other site 652103005755 catalytic residues [active] 652103005756 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 652103005757 putative active site [active] 652103005758 homotetrameric interface [polypeptide binding]; other site 652103005759 metal binding site [ion binding]; metal-binding site 652103005760 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103005761 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 652103005762 substrate binding pocket [chemical binding]; other site 652103005763 FAD binding site [chemical binding]; other site 652103005764 catalytic base [active] 652103005765 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 652103005766 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 652103005767 substrate binding site [chemical binding]; other site 652103005768 oxyanion hole (OAH) forming residues; other site 652103005769 trimer interface [polypeptide binding]; other site 652103005770 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 652103005771 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 652103005772 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 652103005773 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 652103005774 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 652103005775 active site 652103005776 acyl-activating enzyme (AAE) consensus motif; other site 652103005777 putative CoA binding site [chemical binding]; other site 652103005778 AMP binding site [chemical binding]; other site 652103005779 enoyl-CoA hydratase; Provisional; Region: PRK08260 652103005780 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 652103005781 substrate binding site [chemical binding]; other site 652103005782 oxyanion hole (OAH) forming residues; other site 652103005783 trimer interface [polypeptide binding]; other site 652103005784 amidase; Provisional; Region: PRK07042 652103005785 Amidase; Region: Amidase; cl11426 652103005786 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 652103005787 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 652103005788 metal binding site [ion binding]; metal-binding site 652103005789 putative dimer interface [polypeptide binding]; other site 652103005790 Fic family protein [Function unknown]; Region: COG3177 652103005791 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 652103005792 Fic/DOC family; Region: Fic; pfam02661 652103005793 Fic family protein [Function unknown]; Region: COG3177 652103005794 Fic/DOC family; Region: Fic; pfam02661 652103005795 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 652103005796 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 652103005797 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 652103005798 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103005799 Ligand Binding Site [chemical binding]; other site 652103005800 salicylate hydroxylase; Provisional; Region: PRK08163 652103005801 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 652103005802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 652103005803 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103005804 serine acetyltransferase; Provisional; Region: cysE; PRK11132 652103005805 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 652103005806 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 652103005807 trimer interface [polypeptide binding]; other site 652103005808 active site 652103005809 substrate binding site [chemical binding]; other site 652103005810 CoA binding site [chemical binding]; other site 652103005811 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 652103005812 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 652103005813 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 652103005814 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 652103005815 trimer interface [polypeptide binding]; other site 652103005816 putative metal binding site [ion binding]; other site 652103005817 Porin subfamily; Region: Porin_2; pfam02530 652103005818 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103005819 MarR family; Region: MarR_2; pfam12802 652103005820 Ribosomal protein S21; Region: Ribosomal_S21; pfam01165 652103005821 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 652103005822 PilZ domain; Region: PilZ; pfam07238 652103005823 PilZ domain; Region: PilZ; pfam07238 652103005824 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103005825 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 652103005826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 652103005827 PAS domain; Region: PAS_5; pfam07310 652103005828 Rhomboid family; Region: Rhomboid; pfam01694 652103005829 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 652103005830 FOG: CBS domain [General function prediction only]; Region: COG0517 652103005831 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103005832 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103005833 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103005834 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 652103005835 hypothetical protein; Provisional; Region: PRK10279 652103005836 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 652103005837 nucleophile elbow; other site 652103005838 PAS domain S-box; Region: sensory_box; TIGR00229 652103005839 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 652103005840 putative active site [active] 652103005841 heme pocket [chemical binding]; other site 652103005842 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103005843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103005844 metal binding site [ion binding]; metal-binding site 652103005845 active site 652103005846 I-site; other site 652103005847 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 652103005848 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 652103005849 putative FMN binding site [chemical binding]; other site 652103005850 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 652103005851 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 652103005852 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 652103005853 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 652103005854 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 652103005855 active site 652103005856 dimer interface [polypeptide binding]; other site 652103005857 motif 1; other site 652103005858 motif 2; other site 652103005859 motif 3; other site 652103005860 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 652103005861 anticodon binding site; other site 652103005862 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 652103005863 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103005864 putative substrate translocation pore; other site 652103005865 Methyltransferase domain; Region: Methyltransf_24; pfam13578 652103005866 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103005867 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103005868 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 652103005869 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 652103005870 DNA-binding site [nucleotide binding]; DNA binding site 652103005871 RNA-binding motif; other site 652103005872 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 652103005873 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 652103005874 transmembrane helices; other site 652103005875 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 652103005876 hypothetical protein; Validated; Region: PRK00041 652103005877 Predicted periplasmic protein [Function unknown]; Region: COG3904 652103005878 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 652103005879 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 652103005880 trimerization site [polypeptide binding]; other site 652103005881 active site 652103005882 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 652103005883 GTP cyclohydrolase I; Provisional; Region: PLN03044 652103005884 active site 652103005885 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 652103005886 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 652103005887 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103005888 catalytic residue [active] 652103005889 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103005890 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103005891 LysR substrate binding domain; Region: LysR_substrate; pfam03466 652103005892 dimerization interface [polypeptide binding]; other site 652103005893 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103005894 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 652103005895 active site 652103005896 catalytic triad [active] 652103005897 dimer interface [polypeptide binding]; other site 652103005898 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103005899 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 652103005900 active site 652103005901 catalytic triad [active] 652103005902 dimer interface [polypeptide binding]; other site 652103005903 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103005904 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 652103005905 Walker A/P-loop; other site 652103005906 ATP binding site [chemical binding]; other site 652103005907 Q-loop/lid; other site 652103005908 ABC transporter signature motif; other site 652103005909 Walker B; other site 652103005910 D-loop; other site 652103005911 H-loop/switch region; other site 652103005912 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103005913 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 652103005914 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103005915 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 652103005916 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 652103005917 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103005918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103005919 active site 652103005920 phosphorylation site [posttranslational modification] 652103005921 intermolecular recognition site; other site 652103005922 dimerization interface [polypeptide binding]; other site 652103005923 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 652103005924 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103005925 Sensors of blue-light using FAD; Region: BLUF; smart01034 652103005926 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 652103005927 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 652103005928 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 652103005929 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 652103005930 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 652103005931 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 652103005932 SLBB domain; Region: SLBB; pfam10531 652103005933 O-Antigen ligase; Region: Wzy_C; pfam04932 652103005934 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 652103005935 Bacterial sugar transferase; Region: Bac_transf; pfam02397 652103005936 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 652103005937 Chain length determinant protein; Region: Wzz; cl15801 652103005938 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 652103005939 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103005940 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 652103005941 active site 652103005942 metal binding site [ion binding]; metal-binding site 652103005943 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 652103005944 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 652103005945 putative ADP-binding pocket [chemical binding]; other site 652103005946 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 652103005947 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 652103005948 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 652103005949 inhibitor-cofactor binding pocket; inhibition site 652103005950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103005951 catalytic residue [active] 652103005952 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 652103005953 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 652103005954 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 652103005955 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 652103005956 active site 652103005957 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 652103005958 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103005959 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 652103005960 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 652103005961 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 652103005962 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 652103005963 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 652103005964 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 652103005965 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 652103005966 acyl-activating enzyme (AAE) consensus motif; other site 652103005967 AMP binding site [chemical binding]; other site 652103005968 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 652103005969 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 652103005970 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 652103005971 active site 652103005972 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 652103005973 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 652103005974 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 652103005975 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 652103005976 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 652103005977 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103005978 catalytic residue [active] 652103005979 Condensation domain; Region: Condensation; pfam00668 652103005980 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 652103005981 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 652103005982 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 652103005983 acyl-activating enzyme (AAE) consensus motif; other site 652103005984 AMP binding site [chemical binding]; other site 652103005985 Condensation domain; Region: Condensation; pfam00668 652103005986 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 652103005987 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 652103005988 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 652103005989 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 652103005990 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 652103005991 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 652103005992 Curlin associated repeat; Region: Curlin_rpt; pfam07012 652103005993 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 652103005994 major curlin subunit; Provisional; Region: csgA; PRK10051 652103005995 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 652103005996 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 652103005997 non-specific DNA binding site [nucleotide binding]; other site 652103005998 sequence-specific DNA binding site [nucleotide binding]; other site 652103005999 salt bridge; other site 652103006000 putative methyltransferase, LIC12133 family; Region: MTase_LIC12133; TIGR04325 652103006001 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 652103006002 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 652103006003 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 652103006004 Substrate binding site; other site 652103006005 Cupin domain; Region: Cupin_2; cl17218 652103006006 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 652103006007 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 652103006008 active site 652103006009 substrate binding site [chemical binding]; other site 652103006010 metal binding site [ion binding]; metal-binding site 652103006011 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 652103006012 active site 652103006013 putative substrate binding region [chemical binding]; other site 652103006014 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 652103006015 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 652103006016 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103006017 protein binding site [polypeptide binding]; other site 652103006018 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 652103006019 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 652103006020 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 652103006021 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 652103006022 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 652103006023 active site 652103006024 catalytic site [active] 652103006025 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 652103006026 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 652103006027 dimerization interface [polypeptide binding]; other site 652103006028 metal binding site [ion binding]; metal-binding site 652103006029 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 652103006030 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 652103006031 Walker A motif; other site 652103006032 ATP binding site [chemical binding]; other site 652103006033 Walker B motif; other site 652103006034 arginine finger; other site 652103006035 Peptidase family M41; Region: Peptidase_M41; pfam01434 652103006036 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 652103006037 non-specific DNA binding site [nucleotide binding]; other site 652103006038 salt bridge; other site 652103006039 sequence-specific DNA binding site [nucleotide binding]; other site 652103006040 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 652103006041 binding surface 652103006042 TPR motif; other site 652103006043 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006044 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006045 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006046 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006047 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006048 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006049 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006050 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006051 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006052 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006053 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103006054 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103006055 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 652103006056 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 652103006057 Walker A/P-loop; other site 652103006058 ATP binding site [chemical binding]; other site 652103006059 Q-loop/lid; other site 652103006060 ABC transporter signature motif; other site 652103006061 Walker B; other site 652103006062 D-loop; other site 652103006063 H-loop/switch region; other site 652103006064 HlyD family secretion protein; Region: HlyD; pfam00529 652103006065 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103006066 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103006067 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 652103006068 Autoinducer binding domain; Region: Autoind_bind; pfam03472 652103006069 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103006070 DNA binding residues [nucleotide binding] 652103006071 dimerization interface [polypeptide binding]; other site 652103006072 Autoinducer synthetase; Region: Autoind_synth; cl17404 652103006073 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 652103006074 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103006075 Catalytic site; other site 652103006076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 652103006077 phosphorylation site [posttranslational modification] 652103006078 intermolecular recognition site; other site 652103006079 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 652103006080 Transposase; Region: HTH_Tnp_1; pfam01527 652103006081 putative transposase OrfB; Reviewed; Region: PHA02517 652103006082 HTH-like domain; Region: HTH_21; pfam13276 652103006083 Integrase core domain; Region: rve; pfam00665 652103006084 Integrase core domain; Region: rve_3; pfam13683 652103006085 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 652103006086 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 652103006087 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 652103006088 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 652103006089 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 652103006090 DNA binding residues [nucleotide binding] 652103006091 Domain of unknown function (DUF955); Region: DUF955; pfam06114 652103006092 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 652103006093 Part of AAA domain; Region: AAA_19; pfam13245 652103006094 Family description; Region: UvrD_C_2; pfam13538 652103006095 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 652103006096 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 652103006097 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 652103006098 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 652103006099 hypothetical protein; Provisional; Region: PRK06153 652103006100 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 652103006101 ATP binding site [chemical binding]; other site 652103006102 substrate interface [chemical binding]; other site 652103006103 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 652103006104 Caspase domain; Region: Peptidase_C14; pfam00656 652103006105 Superfamily II helicase [General function prediction only]; Region: COG1204 652103006106 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 652103006107 ATP binding site [chemical binding]; other site 652103006108 putative Mg++ binding site [ion binding]; other site 652103006109 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 652103006110 ATP-binding site [chemical binding]; other site 652103006111 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 652103006112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006113 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 652103006114 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103006115 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 652103006116 active site 652103006117 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103006118 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 652103006119 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 652103006120 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 652103006121 active site 652103006122 TDP-binding site; other site 652103006123 acceptor substrate-binding pocket; other site 652103006124 FkbH-like domain; Region: FkbH; TIGR01686 652103006125 Acid Phosphatase; Region: Acid_PPase; cl17256 652103006126 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 652103006127 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 652103006128 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 652103006129 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 652103006130 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 652103006131 RHS Repeat; Region: RHS_repeat; pfam05593 652103006132 RHS Repeat; Region: RHS_repeat; pfam05593 652103006133 RHS protein; Region: RHS; pfam03527 652103006134 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 652103006135 integrase; Provisional; Region: PRK09692 652103006136 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 652103006137 active site 652103006138 DNA binding site [nucleotide binding] 652103006139 Int/Topo IB signature motif; other site 652103006140 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 652103006141 putative catalytic site [active] 652103006142 putative phosphate binding site [ion binding]; other site 652103006143 active site 652103006144 metal binding site A [ion binding]; metal-binding site 652103006145 DNA binding site [nucleotide binding] 652103006146 putative AP binding site [nucleotide binding]; other site 652103006147 putative metal binding site B [ion binding]; other site 652103006148 enoyl-CoA hydratase; Provisional; Region: PRK08140 652103006149 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 652103006150 substrate binding site [chemical binding]; other site 652103006151 oxyanion hole (OAH) forming residues; other site 652103006152 trimer interface [polypeptide binding]; other site 652103006153 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 652103006154 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103006155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006156 NAD(P) binding site [chemical binding]; other site 652103006157 active site 652103006158 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 652103006159 active site 652103006160 catalytic site [active] 652103006161 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 652103006162 active site 652103006163 catalytic site [active] 652103006164 lipid-transfer protein; Provisional; Region: PRK08256 652103006165 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 652103006166 active site 652103006167 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103006168 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103006169 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 652103006170 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103006171 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103006172 acyl-activating enzyme (AAE) consensus motif; other site 652103006173 acyl-activating enzyme (AAE) consensus motif; other site 652103006174 putative AMP binding site [chemical binding]; other site 652103006175 putative active site [active] 652103006176 putative CoA binding site [chemical binding]; other site 652103006177 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103006178 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 652103006179 putative ligand binding site [chemical binding]; other site 652103006180 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 652103006181 TM-ABC transporter signature motif; other site 652103006182 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103006183 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 652103006184 TM-ABC transporter signature motif; other site 652103006185 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103006186 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103006187 Walker A/P-loop; other site 652103006188 ATP binding site [chemical binding]; other site 652103006189 Q-loop/lid; other site 652103006190 ABC transporter signature motif; other site 652103006191 Walker B; other site 652103006192 D-loop; other site 652103006193 H-loop/switch region; other site 652103006194 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103006195 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103006196 Walker A/P-loop; other site 652103006197 ATP binding site [chemical binding]; other site 652103006198 Q-loop/lid; other site 652103006199 ABC transporter signature motif; other site 652103006200 Walker B; other site 652103006201 D-loop; other site 652103006202 H-loop/switch region; other site 652103006203 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103006204 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103006205 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103006206 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103006207 active site 652103006208 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 652103006209 Phosphotransferase enzyme family; Region: APH; pfam01636 652103006210 putative active site [active] 652103006211 putative substrate binding site [chemical binding]; other site 652103006212 ATP binding site [chemical binding]; other site 652103006213 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 652103006214 classical (c) SDRs; Region: SDR_c; cd05233 652103006215 NAD(P) binding site [chemical binding]; other site 652103006216 active site 652103006217 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 652103006218 catalytic core [active] 652103006219 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 652103006220 classical (c) SDRs; Region: SDR_c; cd05233 652103006221 NAD(P) binding site [chemical binding]; other site 652103006222 active site 652103006223 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 652103006224 Beta-lactamase; Region: Beta-lactamase; pfam00144 652103006225 elongation factor Tu; Reviewed; Region: PRK00049 652103006226 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 652103006227 G1 box; other site 652103006228 GEF interaction site [polypeptide binding]; other site 652103006229 GTP/Mg2+ binding site [chemical binding]; other site 652103006230 Switch I region; other site 652103006231 G2 box; other site 652103006232 G3 box; other site 652103006233 Switch II region; other site 652103006234 G4 box; other site 652103006235 G5 box; other site 652103006236 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 652103006237 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 652103006238 Antibiotic Binding Site [chemical binding]; other site 652103006239 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 652103006240 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103006241 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 652103006242 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103006243 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103006244 N-terminal plug; other site 652103006245 ligand-binding site [chemical binding]; other site 652103006246 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 652103006247 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 652103006248 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 652103006249 putative homodimer interface [polypeptide binding]; other site 652103006250 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 652103006251 heterodimer interface [polypeptide binding]; other site 652103006252 homodimer interface [polypeptide binding]; other site 652103006253 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 652103006254 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 652103006255 23S rRNA interface [nucleotide binding]; other site 652103006256 L7/L12 interface [polypeptide binding]; other site 652103006257 putative thiostrepton binding site; other site 652103006258 L25 interface [polypeptide binding]; other site 652103006259 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 652103006260 mRNA/rRNA interface [nucleotide binding]; other site 652103006261 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 652103006262 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 652103006263 putative ligand binding site [chemical binding]; other site 652103006264 NAD binding site [chemical binding]; other site 652103006265 catalytic site [active] 652103006266 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 652103006267 23S rRNA interface [nucleotide binding]; other site 652103006268 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 652103006269 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 652103006270 L11 interface [polypeptide binding]; other site 652103006271 putative EF-Tu interaction site [polypeptide binding]; other site 652103006272 putative EF-G interaction site [polypeptide binding]; other site 652103006273 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 652103006274 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 652103006275 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 652103006276 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 652103006277 RPB11 interaction site [polypeptide binding]; other site 652103006278 RPB12 interaction site [polypeptide binding]; other site 652103006279 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 652103006280 RPB3 interaction site [polypeptide binding]; other site 652103006281 RPB1 interaction site [polypeptide binding]; other site 652103006282 RPB11 interaction site [polypeptide binding]; other site 652103006283 RPB10 interaction site [polypeptide binding]; other site 652103006284 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 652103006285 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 652103006286 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 652103006287 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 652103006288 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 652103006289 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 652103006290 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 652103006291 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 652103006292 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 652103006293 DNA binding site [nucleotide binding] 652103006294 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 652103006295 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103006296 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 652103006297 Methyltransferase domain; Region: Methyltransf_11; pfam08241 652103006298 S-adenosylmethionine binding site [chemical binding]; other site 652103006299 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 652103006300 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 652103006301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103006302 Walker A/P-loop; other site 652103006303 ATP binding site [chemical binding]; other site 652103006304 Q-loop/lid; other site 652103006305 ABC transporter signature motif; other site 652103006306 Walker B; other site 652103006307 D-loop; other site 652103006308 H-loop/switch region; other site 652103006309 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103006310 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 652103006311 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 652103006312 dimer interface [polypeptide binding]; other site 652103006313 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103006314 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103006315 putative substrate translocation pore; other site 652103006316 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 652103006317 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 652103006318 S-adenosylmethionine binding site [chemical binding]; other site 652103006319 Cupin domain; Region: Cupin_2; cl17218 652103006320 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103006321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103006322 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 652103006323 S17 interaction site [polypeptide binding]; other site 652103006324 S8 interaction site; other site 652103006325 16S rRNA interaction site [nucleotide binding]; other site 652103006326 streptomycin interaction site [chemical binding]; other site 652103006327 23S rRNA interaction site [nucleotide binding]; other site 652103006328 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 652103006329 30S ribosomal protein S7; Validated; Region: PRK05302 652103006330 elongation factor G; Reviewed; Region: PRK00007 652103006331 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 652103006332 G1 box; other site 652103006333 putative GEF interaction site [polypeptide binding]; other site 652103006334 GTP/Mg2+ binding site [chemical binding]; other site 652103006335 Switch I region; other site 652103006336 G2 box; other site 652103006337 G3 box; other site 652103006338 Switch II region; other site 652103006339 G4 box; other site 652103006340 G5 box; other site 652103006341 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 652103006342 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 652103006343 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 652103006344 elongation factor Tu; Reviewed; Region: PRK00049 652103006345 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 652103006346 G1 box; other site 652103006347 GEF interaction site [polypeptide binding]; other site 652103006348 GTP/Mg2+ binding site [chemical binding]; other site 652103006349 Switch I region; other site 652103006350 G2 box; other site 652103006351 G3 box; other site 652103006352 Switch II region; other site 652103006353 G4 box; other site 652103006354 G5 box; other site 652103006355 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 652103006356 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 652103006357 Antibiotic Binding Site [chemical binding]; other site 652103006358 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 652103006359 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 652103006360 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 652103006361 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 652103006362 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 652103006363 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 652103006364 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 652103006365 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 652103006366 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 652103006367 putative translocon binding site; other site 652103006368 protein-rRNA interface [nucleotide binding]; other site 652103006369 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 652103006370 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 652103006371 G-X-X-G motif; other site 652103006372 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 652103006373 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 652103006374 23S rRNA interface [nucleotide binding]; other site 652103006375 5S rRNA interface [nucleotide binding]; other site 652103006376 putative antibiotic binding site [chemical binding]; other site 652103006377 L25 interface [polypeptide binding]; other site 652103006378 L27 interface [polypeptide binding]; other site 652103006379 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 652103006380 23S rRNA interface [nucleotide binding]; other site 652103006381 putative translocon interaction site; other site 652103006382 signal recognition particle (SRP54) interaction site; other site 652103006383 L23 interface [polypeptide binding]; other site 652103006384 trigger factor interaction site; other site 652103006385 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 652103006386 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 652103006387 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 652103006388 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 652103006389 RNA binding site [nucleotide binding]; other site 652103006390 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 652103006391 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 652103006392 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 652103006393 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 652103006394 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 652103006395 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 652103006396 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 652103006397 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 652103006398 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 652103006399 5S rRNA interface [nucleotide binding]; other site 652103006400 23S rRNA interface [nucleotide binding]; other site 652103006401 L5 interface [polypeptide binding]; other site 652103006402 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 652103006403 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 652103006404 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 652103006405 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 652103006406 23S rRNA binding site [nucleotide binding]; other site 652103006407 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 652103006408 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 652103006409 SecY translocase; Region: SecY; pfam00344 652103006410 adenylate kinase; Reviewed; Region: adk; PRK00279 652103006411 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 652103006412 AMP-binding site [chemical binding]; other site 652103006413 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 652103006414 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 652103006415 30S ribosomal protein S13; Region: bact_S13; TIGR03631 652103006416 30S ribosomal protein S11; Validated; Region: PRK05309 652103006417 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 652103006418 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 652103006419 alphaNTD - beta interaction site [polypeptide binding]; other site 652103006420 alphaNTD homodimer interface [polypeptide binding]; other site 652103006421 alphaNTD - beta' interaction site [polypeptide binding]; other site 652103006422 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 652103006423 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 652103006424 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 652103006425 classical (c) SDRs; Region: SDR_c; cd05233 652103006426 NAD(P) binding site [chemical binding]; other site 652103006427 active site 652103006428 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 652103006429 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 652103006430 putative NAD(P) binding site [chemical binding]; other site 652103006431 dimer interface [polypeptide binding]; other site 652103006432 Predicted transcriptional regulators [Transcription]; Region: COG1733 652103006433 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 652103006434 dimerization interface [polypeptide binding]; other site 652103006435 putative DNA binding site [nucleotide binding]; other site 652103006436 putative Zn2+ binding site [ion binding]; other site 652103006437 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 652103006438 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 652103006439 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103006440 protein binding site [polypeptide binding]; other site 652103006441 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103006442 protein binding site [polypeptide binding]; other site 652103006443 recombination factor protein RarA; Reviewed; Region: PRK13342 652103006444 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 652103006445 Walker A motif; other site 652103006446 ATP binding site [chemical binding]; other site 652103006447 Walker B motif; other site 652103006448 arginine finger; other site 652103006449 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 652103006450 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103006451 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103006452 metal binding site [ion binding]; metal-binding site 652103006453 active site 652103006454 I-site; other site 652103006455 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 652103006456 Uncharacterized conserved protein [Function unknown]; Region: COG0432 652103006457 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_8; cd06343 652103006458 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103006459 putative ligand binding site [chemical binding]; other site 652103006460 PAS domain S-box; Region: sensory_box; TIGR00229 652103006461 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 652103006462 PAS fold; Region: PAS_3; pfam08447 652103006463 putative active site [active] 652103006464 heme pocket [chemical binding]; other site 652103006465 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 652103006466 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103006467 dimer interface [polypeptide binding]; other site 652103006468 phosphorylation site [posttranslational modification] 652103006469 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 652103006470 ATP binding site [chemical binding]; other site 652103006471 Mg2+ binding site [ion binding]; other site 652103006472 G-X-G motif; other site 652103006473 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103006474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103006475 active site 652103006476 phosphorylation site [posttranslational modification] 652103006477 intermolecular recognition site; other site 652103006478 dimerization interface [polypeptide binding]; other site 652103006479 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 652103006480 putative FMN binding site [chemical binding]; other site 652103006481 SIR2-like domain; Region: SIR2_2; pfam13289 652103006482 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 652103006483 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 652103006484 RNA binding surface [nucleotide binding]; other site 652103006485 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 652103006486 active site 652103006487 ATP12 chaperone protein; Region: ATP12; cl02228 652103006488 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 652103006489 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 652103006490 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 652103006491 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 652103006492 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 652103006493 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 652103006494 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 652103006495 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 652103006496 putative NAD(P) binding site [chemical binding]; other site 652103006497 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 652103006498 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 652103006499 nucleophilic elbow; other site 652103006500 catalytic triad; other site 652103006501 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 652103006502 active site 652103006503 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 652103006504 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 652103006505 Catalytic domain of Protein Kinases; Region: PKc; cd00180 652103006506 active site 652103006507 ATP binding site [chemical binding]; other site 652103006508 substrate binding site [chemical binding]; other site 652103006509 activation loop (A-loop); other site 652103006510 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103006511 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 652103006512 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 652103006513 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 652103006514 dimer interface [polypeptide binding]; other site 652103006515 PYR/PP interface [polypeptide binding]; other site 652103006516 TPP binding site [chemical binding]; other site 652103006517 substrate binding site [chemical binding]; other site 652103006518 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 652103006519 TPP-binding site [chemical binding]; other site 652103006520 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 652103006521 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 652103006522 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 652103006523 active site 652103006524 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 652103006525 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 652103006526 DUF35 OB-fold domain; Region: DUF35; pfam01796 652103006527 enoyl-CoA hydratase; Region: PLN02864 652103006528 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 652103006529 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 652103006530 dimer interaction site [polypeptide binding]; other site 652103006531 substrate-binding tunnel; other site 652103006532 active site 652103006533 catalytic site [active] 652103006534 substrate binding site [chemical binding]; other site 652103006535 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 652103006536 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 652103006537 inhibitor site; inhibition site 652103006538 active site 652103006539 dimer interface [polypeptide binding]; other site 652103006540 catalytic residue [active] 652103006541 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 652103006542 nudix motif; other site 652103006543 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 652103006544 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 652103006545 Trp docking motif [polypeptide binding]; other site 652103006546 cytochrome domain interface [polypeptide binding]; other site 652103006547 active site 652103006548 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 652103006549 HAMP domain; Region: HAMP; pfam00672 652103006550 PAS domain S-box; Region: sensory_box; TIGR00229 652103006551 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 652103006552 putative active site [active] 652103006553 heme pocket [chemical binding]; other site 652103006554 PAS fold; Region: PAS_4; pfam08448 652103006555 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 652103006556 putative active site [active] 652103006557 heme pocket [chemical binding]; other site 652103006558 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103006559 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 652103006560 ATP binding site [chemical binding]; other site 652103006561 Mg2+ binding site [ion binding]; other site 652103006562 G-X-G motif; other site 652103006563 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 652103006564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103006565 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103006566 dimer interface [polypeptide binding]; other site 652103006567 putative CheW interface [polypeptide binding]; other site 652103006568 EamA-like transporter family; Region: EamA; pfam00892 652103006569 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 652103006570 DNA photolyase; Region: DNA_photolyase; pfam00875 652103006571 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 652103006572 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 652103006573 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103006574 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 652103006575 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 652103006576 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 652103006577 carboxyltransferase (CT) interaction site; other site 652103006578 biotinylation site [posttranslational modification]; other site 652103006579 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 652103006580 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 652103006581 tetramer interface [polypeptide binding]; other site 652103006582 active site 652103006583 Mg2+/Mn2+ binding site [ion binding]; other site 652103006584 acylphosphatase; Provisional; Region: PRK14421 652103006585 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 652103006586 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 652103006587 putative active site [active] 652103006588 heme pocket [chemical binding]; other site 652103006589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103006590 metal binding site [ion binding]; metal-binding site 652103006591 active site 652103006592 I-site; other site 652103006593 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 652103006594 lipoate-protein ligase B; Provisional; Region: PRK14341 652103006595 hypothetical protein; Validated; Region: PRK06033 652103006596 RES domain; Region: RES; pfam08808 652103006597 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 652103006598 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 652103006599 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 652103006600 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 652103006601 NodB motif; other site 652103006602 active site 652103006603 catalytic site [active] 652103006604 metal binding site [ion binding]; metal-binding site 652103006605 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 652103006606 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 652103006607 NodB motif; other site 652103006608 active site 652103006609 catalytic site [active] 652103006610 metal binding site [ion binding]; metal-binding site 652103006611 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 652103006612 MgtE intracellular N domain; Region: MgtE_N; smart00924 652103006613 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 652103006614 Divalent cation transporter; Region: MgtE; cl00786 652103006615 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 652103006616 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 652103006617 active site 652103006618 catalytic tetrad [active] 652103006619 Uncharacterized conserved protein [Function unknown]; Region: COG1434 652103006620 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 652103006621 putative active site [active] 652103006622 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 652103006623 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 652103006624 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103006625 putative C-terminal domain interface [polypeptide binding]; other site 652103006626 putative GSH binding site (G-site) [chemical binding]; other site 652103006627 putative dimer interface [polypeptide binding]; other site 652103006628 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 652103006629 putative substrate binding pocket (H-site) [chemical binding]; other site 652103006630 putative N-terminal domain interface [polypeptide binding]; other site 652103006631 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 652103006632 Pantoate-beta-alanine ligase; Region: PanC; cd00560 652103006633 pantoate--beta-alanine ligase; Region: panC; TIGR00018 652103006634 active site 652103006635 ATP-binding site [chemical binding]; other site 652103006636 pantoate-binding site; other site 652103006637 HXXH motif; other site 652103006638 ATPase MipZ; Region: MipZ; pfam09140 652103006639 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 652103006640 P-loop; other site 652103006641 Magnesium ion binding site [ion binding]; other site 652103006642 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 652103006643 Magnesium ion binding site [ion binding]; other site 652103006644 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 652103006645 von Willebrand factor type A domain; Region: VWA_2; pfam13519 652103006646 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 652103006647 HSP70 interaction site [polypeptide binding]; other site 652103006648 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 652103006649 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 652103006650 Sporulation related domain; Region: SPOR; pfam05036 652103006651 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 652103006652 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 652103006653 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 652103006654 Uncharacterized conserved protein [Function unknown]; Region: COG2127 652103006655 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 652103006656 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 652103006657 Walker A motif; other site 652103006658 ATP binding site [chemical binding]; other site 652103006659 Walker B motif; other site 652103006660 arginine finger; other site 652103006661 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 652103006662 Walker A motif; other site 652103006663 ATP binding site [chemical binding]; other site 652103006664 Walker B motif; other site 652103006665 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 652103006666 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 652103006667 glycine reductase, selenoprotein B; Region: gly_red_sel_B; TIGR01917 652103006668 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 652103006669 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 652103006670 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103006671 catalytic residue [active] 652103006672 Sporulation related domain; Region: SPOR; pfam05036 652103006673 AzlC protein; Region: AzlC; pfam03591 652103006674 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 652103006675 homodimer interaction site [polypeptide binding]; other site 652103006676 cofactor binding site; other site 652103006677 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 652103006678 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 652103006679 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 652103006680 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 652103006681 HIT family signature motif; other site 652103006682 catalytic residue [active] 652103006683 Protein of unknown function, DUF482; Region: DUF482; pfam04339 652103006684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 652103006685 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 652103006686 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 652103006687 putative active site [active] 652103006688 catalytic site [active] 652103006689 putative metal binding site [ion binding]; other site 652103006690 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 652103006691 homotrimer interaction site [polypeptide binding]; other site 652103006692 putative active site [active] 652103006693 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 652103006694 DNA polymerase IV; Provisional; Region: PRK02794 652103006695 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 652103006696 active site 652103006697 DNA binding site [nucleotide binding] 652103006698 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 652103006699 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103006700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103006701 active site 652103006702 phosphorylation site [posttranslational modification] 652103006703 intermolecular recognition site; other site 652103006704 dimerization interface [polypeptide binding]; other site 652103006705 response regulator PleD; Reviewed; Region: pleD; PRK09581 652103006706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103006707 active site 652103006708 phosphorylation site [posttranslational modification] 652103006709 intermolecular recognition site; other site 652103006710 dimerization interface [polypeptide binding]; other site 652103006711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103006712 active site 652103006713 phosphorylation site [posttranslational modification] 652103006714 intermolecular recognition site; other site 652103006715 dimerization interface [polypeptide binding]; other site 652103006716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103006717 metal binding site [ion binding]; metal-binding site 652103006718 active site 652103006719 I-site; other site 652103006720 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 652103006721 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 652103006722 non-specific DNA binding site [nucleotide binding]; other site 652103006723 salt bridge; other site 652103006724 sequence-specific DNA binding site [nucleotide binding]; other site 652103006725 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 652103006726 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 652103006727 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103006728 putative substrate translocation pore; other site 652103006729 Protein of unknown function (DUF983); Region: DUF983; cl02211 652103006730 ribonuclease R; Region: RNase_R; TIGR02063 652103006731 RNB domain; Region: RNB; pfam00773 652103006732 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 652103006733 RNA binding site [nucleotide binding]; other site 652103006734 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 652103006735 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 652103006736 active site 652103006737 interdomain interaction site; other site 652103006738 putative metal-binding site [ion binding]; other site 652103006739 nucleotide binding site [chemical binding]; other site 652103006740 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 652103006741 domain I; other site 652103006742 DNA binding groove [nucleotide binding] 652103006743 phosphate binding site [ion binding]; other site 652103006744 domain II; other site 652103006745 domain III; other site 652103006746 nucleotide binding site [chemical binding]; other site 652103006747 catalytic site [active] 652103006748 domain IV; other site 652103006749 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 652103006750 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 652103006751 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 652103006752 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 652103006753 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 652103006754 DNA protecting protein DprA; Region: dprA; TIGR00732 652103006755 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 652103006756 dihydroorotase; Validated; Region: PRK09059 652103006757 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 652103006758 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 652103006759 active site 652103006760 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 652103006761 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 652103006762 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 652103006763 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 652103006764 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 652103006765 dimer interface [polypeptide binding]; other site 652103006766 PYR/PP interface [polypeptide binding]; other site 652103006767 TPP binding site [chemical binding]; other site 652103006768 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 652103006769 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 652103006770 TPP-binding site [chemical binding]; other site 652103006771 dimer interface [polypeptide binding]; other site 652103006772 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103006773 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103006774 active site 652103006775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 652103006776 SEC-C motif; Region: SEC-C; pfam02810 652103006777 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 652103006778 Putative cyclase; Region: Cyclase; pfam04199 652103006779 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 652103006780 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 652103006781 FMN binding site [chemical binding]; other site 652103006782 substrate binding site [chemical binding]; other site 652103006783 putative catalytic residue [active] 652103006784 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 652103006785 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 652103006786 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 652103006787 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 652103006788 PAS domain; Region: PAS_9; pfam13426 652103006789 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103006790 Histidine kinase; Region: HisKA_2; pfam07568 652103006791 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 652103006792 ATP binding site [chemical binding]; other site 652103006793 Mg2+ binding site [ion binding]; other site 652103006794 G-X-G motif; other site 652103006795 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 652103006796 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 652103006797 GatB domain; Region: GatB_Yqey; smart00845 652103006798 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 652103006799 Sel1 repeat; Region: Sel1; cl02723 652103006800 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 652103006801 NnrU protein; Region: NnrU; pfam07298 652103006802 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 652103006803 oligomerization interface [polypeptide binding]; other site 652103006804 active site 652103006805 metal binding site [ion binding]; metal-binding site 652103006806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 652103006807 GTP-binding protein Der; Reviewed; Region: PRK00093 652103006808 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 652103006809 G1 box; other site 652103006810 GTP/Mg2+ binding site [chemical binding]; other site 652103006811 Switch I region; other site 652103006812 G2 box; other site 652103006813 Switch II region; other site 652103006814 G3 box; other site 652103006815 G4 box; other site 652103006816 G5 box; other site 652103006817 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 652103006818 G1 box; other site 652103006819 GTP/Mg2+ binding site [chemical binding]; other site 652103006820 Switch I region; other site 652103006821 G2 box; other site 652103006822 G3 box; other site 652103006823 Switch II region; other site 652103006824 G4 box; other site 652103006825 G5 box; other site 652103006826 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103006827 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103006828 putative substrate translocation pore; other site 652103006829 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 652103006830 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 652103006831 ig-like, plexins, transcription factors; Region: IPT; smart00429 652103006832 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 652103006833 Autotransporter beta-domain; Region: Autotransporter; smart00869 652103006834 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 652103006835 Phage Tail Collar Domain; Region: Collar; pfam07484 652103006836 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103006837 Coenzyme A binding pocket [chemical binding]; other site 652103006838 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103006839 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 652103006840 putative ligand binding site [chemical binding]; other site 652103006841 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 652103006842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006843 NAD(P) binding site [chemical binding]; other site 652103006844 active site 652103006845 amidophosphoribosyltransferase; Provisional; Region: PRK09123 652103006846 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 652103006847 active site 652103006848 tetramer interface [polypeptide binding]; other site 652103006849 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103006850 active site 652103006851 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 652103006852 Colicin V production protein; Region: Colicin_V; pfam02674 652103006853 DNA repair protein RadA; Provisional; Region: PRK11823 652103006854 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 652103006855 Walker A motif/ATP binding site; other site 652103006856 ATP binding site [chemical binding]; other site 652103006857 Walker B motif; other site 652103006858 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 652103006859 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 652103006860 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 652103006861 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 652103006862 active site 652103006863 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103006864 dimer interface [polypeptide binding]; other site 652103006865 substrate binding site [chemical binding]; other site 652103006866 catalytic residues [active] 652103006867 replicative DNA helicase; Provisional; Region: PRK09165 652103006868 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 652103006869 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 652103006870 Walker A motif; other site 652103006871 ATP binding site [chemical binding]; other site 652103006872 Walker B motif; other site 652103006873 DNA binding loops [nucleotide binding] 652103006874 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 652103006875 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 652103006876 S-adenosylmethionine binding site [chemical binding]; other site 652103006877 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103006878 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103006879 Xylella fastidiosa protein of unknown function (DUF769); Region: DUF769; pfam05590 652103006880 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103006881 CoenzymeA binding site [chemical binding]; other site 652103006882 subunit interaction site [polypeptide binding]; other site 652103006883 PHB binding site; other site 652103006884 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 652103006885 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 652103006886 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 652103006887 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 652103006888 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 652103006889 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 652103006890 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 652103006891 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 652103006892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006893 NAD(P) binding site [chemical binding]; other site 652103006894 active site 652103006895 acyl carrier protein; Provisional; Region: acpP; PRK00982 652103006896 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 652103006897 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 652103006898 dimer interface [polypeptide binding]; other site 652103006899 active site 652103006900 YceG-like family; Region: YceG; pfam02618 652103006901 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 652103006902 dimerization interface [polypeptide binding]; other site 652103006903 hypothetical protein; Provisional; Region: PRK11820 652103006904 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 652103006905 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 652103006906 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 652103006907 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 652103006908 catalytic site [active] 652103006909 G-X2-G-X-G-K; other site 652103006910 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 652103006911 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 652103006912 putative NAD(P) binding site [chemical binding]; other site 652103006913 catalytic Zn binding site [ion binding]; other site 652103006914 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 652103006915 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 652103006916 S-adenosylmethionine binding site [chemical binding]; other site 652103006917 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 652103006918 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 652103006919 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 652103006920 SurA N-terminal domain; Region: SurA_N; pfam09312 652103006921 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 652103006922 Organic solvent tolerance protein; Region: OstA_C; pfam04453 652103006923 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 652103006924 Predicted permeases [General function prediction only]; Region: COG0795 652103006925 Predicted permeases [General function prediction only]; Region: COG0795 652103006926 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 652103006927 multifunctional aminopeptidase A; Provisional; Region: PRK00913 652103006928 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 652103006929 interface (dimer of trimers) [polypeptide binding]; other site 652103006930 Substrate-binding/catalytic site; other site 652103006931 Zn-binding sites [ion binding]; other site 652103006932 DNA polymerase III subunit chi; Validated; Region: PRK05728 652103006933 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 652103006934 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103006935 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103006936 ABC transporter; Region: ABC_tran_2; pfam12848 652103006937 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103006938 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 652103006939 active site 652103006940 multimer interface [polypeptide binding]; other site 652103006941 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 652103006942 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103006943 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 652103006944 ligand binding site [chemical binding]; other site 652103006945 flexible hinge region; other site 652103006946 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 652103006947 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 652103006948 DNA-binding site [nucleotide binding]; DNA binding site 652103006949 RNA-binding motif; other site 652103006950 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 652103006951 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 652103006952 active site 652103006953 substrate binding site [chemical binding]; other site 652103006954 cosubstrate binding site; other site 652103006955 catalytic site [active] 652103006956 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 652103006957 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 652103006958 dimerization interface [polypeptide binding]; other site 652103006959 putative ATP binding site [chemical binding]; other site 652103006960 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 652103006961 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 652103006962 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 652103006963 polyphosphate kinase; Provisional; Region: PRK05443 652103006964 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 652103006965 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 652103006966 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 652103006967 putative domain interface [polypeptide binding]; other site 652103006968 putative active site [active] 652103006969 catalytic site [active] 652103006970 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 652103006971 putative domain interface [polypeptide binding]; other site 652103006972 putative active site [active] 652103006973 catalytic site [active] 652103006974 exopolyphosphatase; Region: exo_poly_only; TIGR03706 652103006975 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 652103006976 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 652103006977 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 652103006978 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 652103006979 catalytic site [active] 652103006980 putative active site [active] 652103006981 putative substrate binding site [chemical binding]; other site 652103006982 HRDC domain; Region: HRDC; pfam00570 652103006983 hypothetical protein; Validated; Region: PRK00029 652103006984 Uncharacterized conserved protein [Function unknown]; Region: COG0397 652103006985 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 652103006986 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 652103006987 dimer interface [polypeptide binding]; other site 652103006988 anticodon binding site; other site 652103006989 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 652103006990 homodimer interface [polypeptide binding]; other site 652103006991 motif 1; other site 652103006992 active site 652103006993 motif 2; other site 652103006994 GAD domain; Region: GAD; pfam02938 652103006995 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 652103006996 active site 652103006997 motif 3; other site 652103006998 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 652103006999 Malic enzyme, N-terminal domain; Region: malic; pfam00390 652103007000 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 652103007001 putative NAD(P) binding site [chemical binding]; other site 652103007002 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 652103007003 Predicted membrane protein [Function unknown]; Region: COG2259 652103007004 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; cl17426 652103007005 NADP+ binding site [chemical binding]; other site 652103007006 folate binding site [chemical binding]; other site 652103007007 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 652103007008 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 652103007009 NodB motif; other site 652103007010 active site 652103007011 catalytic site [active] 652103007012 metal binding site [ion binding]; metal-binding site 652103007013 hypothetical protein; Provisional; Region: PRK06132 652103007014 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103007015 CreA protein; Region: CreA; pfam05981 652103007016 acetylornithine deacetylase; Provisional; Region: PRK06837 652103007017 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 652103007018 metal binding site [ion binding]; metal-binding site 652103007019 dimer interface [polypeptide binding]; other site 652103007020 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103007021 CoenzymeA binding site [chemical binding]; other site 652103007022 subunit interaction site [polypeptide binding]; other site 652103007023 PHB binding site; other site 652103007024 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 652103007025 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103007026 Coenzyme A binding pocket [chemical binding]; other site 652103007027 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 652103007028 Sel1-like repeats; Region: SEL1; smart00671 652103007029 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 652103007030 potassium uptake protein; Region: kup; TIGR00794 652103007031 CAAX protease self-immunity; Region: Abi; pfam02517 652103007032 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103007033 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103007034 metal binding site [ion binding]; metal-binding site 652103007035 active site 652103007036 I-site; other site 652103007037 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103007038 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103007039 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103007040 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103007041 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103007042 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 652103007043 carboxylate-amine ligase; Provisional; Region: PRK13515 652103007044 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 652103007045 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 652103007046 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 652103007047 dimer interface [polypeptide binding]; other site 652103007048 active site 652103007049 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 652103007050 Ligand Binding Site [chemical binding]; other site 652103007051 Molecular Tunnel; other site 652103007052 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 652103007053 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 652103007054 putative active site [active] 652103007055 putative dimer interface [polypeptide binding]; other site 652103007056 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103007057 Ligand Binding Site [chemical binding]; other site 652103007058 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 652103007059 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103007060 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 652103007061 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103007062 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103007063 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK08600 652103007064 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 652103007065 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103007066 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 652103007067 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 652103007068 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 652103007069 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 652103007070 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 652103007071 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 652103007072 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 652103007073 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 652103007074 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 652103007075 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 652103007076 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 652103007077 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 652103007078 putative ligand binding residues [chemical binding]; other site 652103007079 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 652103007080 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 652103007081 putative PBP binding regions; other site 652103007082 ABC-ATPase subunit interface; other site 652103007083 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 652103007084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103007085 Walker A/P-loop; other site 652103007086 ATP binding site [chemical binding]; other site 652103007087 Q-loop/lid; other site 652103007088 ABC transporter signature motif; other site 652103007089 Walker B; other site 652103007090 D-loop; other site 652103007091 H-loop/switch region; other site 652103007092 Cytochrome C' Region: Cytochrom_C_2; pfam01322 652103007093 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 652103007094 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103007095 CoenzymeA binding site [chemical binding]; other site 652103007096 subunit interaction site [polypeptide binding]; other site 652103007097 PHB binding site; other site 652103007098 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 652103007099 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 652103007100 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 652103007101 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 652103007102 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 652103007103 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 652103007104 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 652103007105 Walker A/P-loop; other site 652103007106 ATP binding site [chemical binding]; other site 652103007107 Q-loop/lid; other site 652103007108 ABC transporter signature motif; other site 652103007109 Walker B; other site 652103007110 D-loop; other site 652103007111 H-loop/switch region; other site 652103007112 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 652103007113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103007114 Walker A/P-loop; other site 652103007115 ATP binding site [chemical binding]; other site 652103007116 Q-loop/lid; other site 652103007117 ABC transporter signature motif; other site 652103007118 Walker B; other site 652103007119 D-loop; other site 652103007120 H-loop/switch region; other site 652103007121 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 652103007122 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103007123 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 652103007124 dimerization interface [polypeptide binding]; other site 652103007125 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 652103007126 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 652103007127 inhibitor-cofactor binding pocket; inhibition site 652103007128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103007129 catalytic residue [active] 652103007130 succinic semialdehyde dehydrogenase; Region: PLN02278 652103007131 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 652103007132 tetramerization interface [polypeptide binding]; other site 652103007133 NAD(P) binding site [chemical binding]; other site 652103007134 catalytic residues [active] 652103007135 acetylornithine deacetylase; Provisional; Region: PRK06837 652103007136 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 652103007137 metal binding site [ion binding]; metal-binding site 652103007138 dimer interface [polypeptide binding]; other site 652103007139 hypothetical protein; Provisional; Region: PRK12474 652103007140 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103007141 PYR/PP interface [polypeptide binding]; other site 652103007142 dimer interface [polypeptide binding]; other site 652103007143 TPP binding site [chemical binding]; other site 652103007144 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 652103007145 TPP-binding site [chemical binding]; other site 652103007146 dimer interface [polypeptide binding]; other site 652103007147 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 652103007148 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 652103007149 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103007150 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 652103007151 dimer interface [polypeptide binding]; other site 652103007152 conserved gate region; other site 652103007153 putative PBP binding loops; other site 652103007154 ABC-ATPase subunit interface; other site 652103007155 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 652103007156 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 652103007157 dimer interface [polypeptide binding]; other site 652103007158 conserved gate region; other site 652103007159 putative PBP binding loops; other site 652103007160 ABC-ATPase subunit interface; other site 652103007161 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 652103007162 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103007163 Walker A/P-loop; other site 652103007164 ATP binding site [chemical binding]; other site 652103007165 Q-loop/lid; other site 652103007166 ABC transporter signature motif; other site 652103007167 Walker B; other site 652103007168 D-loop; other site 652103007169 H-loop/switch region; other site 652103007170 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103007171 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103007172 Walker A/P-loop; other site 652103007173 ATP binding site [chemical binding]; other site 652103007174 Q-loop/lid; other site 652103007175 ABC transporter signature motif; other site 652103007176 Walker B; other site 652103007177 D-loop; other site 652103007178 H-loop/switch region; other site 652103007179 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103007180 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 652103007181 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 652103007182 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 652103007183 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103007184 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 652103007185 NAD(P) binding site [chemical binding]; other site 652103007186 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 652103007187 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 652103007188 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 652103007189 substrate binding pocket [chemical binding]; other site 652103007190 membrane-bound complex binding site; other site 652103007191 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 652103007192 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103007193 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 652103007194 dimer interface [polypeptide binding]; other site 652103007195 ABC-ATPase subunit interface; other site 652103007196 putative PBP binding loops; other site 652103007197 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103007198 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103007199 Walker A/P-loop; other site 652103007200 ATP binding site [chemical binding]; other site 652103007201 Q-loop/lid; other site 652103007202 ABC transporter signature motif; other site 652103007203 Walker B; other site 652103007204 D-loop; other site 652103007205 H-loop/switch region; other site 652103007206 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 652103007207 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 652103007208 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 652103007209 putative substrate binding pocket [chemical binding]; other site 652103007210 trimer interface [polypeptide binding]; other site 652103007211 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103007212 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103007213 metal binding site [ion binding]; metal-binding site 652103007214 active site 652103007215 I-site; other site 652103007216 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 652103007217 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 652103007218 trimer interface [polypeptide binding]; other site 652103007219 active site 652103007220 substrate binding site [chemical binding]; other site 652103007221 CoA binding site [chemical binding]; other site 652103007222 Transposase; Region: HTH_Tnp_1; pfam01527 652103007223 putative transposase OrfB; Reviewed; Region: PHA02517 652103007224 HTH-like domain; Region: HTH_21; pfam13276 652103007225 Integrase core domain; Region: rve; pfam00665 652103007226 Integrase core domain; Region: rve_3; pfam13683 652103007227 TIR domain; Region: TIR_2; pfam13676 652103007228 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 652103007229 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 652103007230 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 652103007231 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 652103007232 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 652103007233 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 652103007234 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 652103007235 active site 652103007236 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 652103007237 TSCPD domain; Region: TSCPD; pfam12637 652103007238 EamA-like transporter family; Region: EamA; pfam00892 652103007239 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 652103007240 EamA-like transporter family; Region: EamA; pfam00892 652103007241 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 652103007242 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 652103007243 ligand binding site [chemical binding]; other site 652103007244 NAD binding site [chemical binding]; other site 652103007245 dimerization interface [polypeptide binding]; other site 652103007246 catalytic site [active] 652103007247 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 652103007248 Amidase; Region: Amidase; cl11426 652103007249 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 652103007250 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 652103007251 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103007252 catalytic residue [active] 652103007253 AAA domain; Region: AAA_26; pfam13500 652103007254 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 652103007255 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 652103007256 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 652103007257 inhibitor-cofactor binding pocket; inhibition site 652103007258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103007259 catalytic residue [active] 652103007260 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103007261 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103007262 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 652103007263 glutamine synthetase; Provisional; Region: glnA; PRK09469 652103007264 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 652103007265 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 652103007266 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 652103007267 Nitrogen regulatory protein P-II; Region: P-II; smart00938 652103007268 Uncharacterized conserved protein [Function unknown]; Region: COG0062 652103007269 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 652103007270 putative substrate binding site [chemical binding]; other site 652103007271 putative ATP binding site [chemical binding]; other site 652103007272 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 652103007273 Multicopper oxidase; Region: Cu-oxidase; pfam00394 652103007274 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 652103007275 trigger factor; Provisional; Region: tig; PRK01490 652103007276 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 652103007277 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 652103007278 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 652103007279 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 652103007280 oligomer interface [polypeptide binding]; other site 652103007281 active site residues [active] 652103007282 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 652103007283 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 652103007284 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 652103007285 Walker A motif; other site 652103007286 ATP binding site [chemical binding]; other site 652103007287 Walker B motif; other site 652103007288 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 652103007289 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 652103007290 Found in ATP-dependent protease La (LON); Region: LON; smart00464 652103007291 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 652103007292 Walker A motif; other site 652103007293 ATP binding site [chemical binding]; other site 652103007294 Walker B motif; other site 652103007295 arginine finger; other site 652103007296 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 652103007297 PAS fold; Region: PAS_7; pfam12860 652103007298 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103007299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103007300 metal binding site [ion binding]; metal-binding site 652103007301 active site 652103007302 I-site; other site 652103007303 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 652103007304 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103007305 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103007306 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103007307 peptidase T; Region: peptidase-T; TIGR01882 652103007308 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 652103007309 metal binding site [ion binding]; metal-binding site 652103007310 dimer interface [polypeptide binding]; other site 652103007311 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 652103007312 IHF - DNA interface [nucleotide binding]; other site 652103007313 IHF dimer interface [polypeptide binding]; other site 652103007314 T5orf172 domain; Region: T5orf172; pfam10544 652103007315 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103007316 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 652103007317 non-specific DNA binding site [nucleotide binding]; other site 652103007318 salt bridge; other site 652103007319 sequence-specific DNA binding site [nucleotide binding]; other site 652103007320 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 652103007321 sequence-specific DNA binding site [nucleotide binding]; other site 652103007322 salt bridge; other site 652103007323 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 652103007324 salt bridge; other site 652103007325 non-specific DNA binding site [nucleotide binding]; other site 652103007326 sequence-specific DNA binding site [nucleotide binding]; other site 652103007327 hypothetical protein; Provisional; Region: PRK13694 652103007328 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 652103007329 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 652103007330 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 652103007331 DNA binding site [nucleotide binding] 652103007332 dimer interface [polypeptide binding]; other site 652103007333 active site 652103007334 Int/Topo IB signature motif; other site 652103007335 Terminase small subunit; Region: Terminase_2; cl01513 652103007336 Terminase-like family; Region: Terminase_6; pfam03237 652103007337 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 652103007338 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 652103007339 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 652103007340 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 652103007341 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 652103007342 Phage Tail Collar Domain; Region: Collar; pfam07484 652103007343 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 652103007344 catalytic residue [active] 652103007345 polyphosphate kinase; Provisional; Region: PRK05443 652103007346 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; pfam13876 652103007347 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 652103007348 NADH dehydrogenase subunit B; Validated; Region: PRK06411 652103007349 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 652103007350 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 652103007351 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 652103007352 NADH dehydrogenase subunit D; Validated; Region: PRK06075 652103007353 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 652103007354 NADH dehydrogenase subunit E; Validated; Region: PRK07539 652103007355 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 652103007356 putative dimer interface [polypeptide binding]; other site 652103007357 [2Fe-2S] cluster binding site [ion binding]; other site 652103007358 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 652103007359 SLBB domain; Region: SLBB; pfam10531 652103007360 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 652103007361 NADH dehydrogenase subunit G; Validated; Region: PRK09130 652103007362 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 652103007363 catalytic loop [active] 652103007364 iron binding site [ion binding]; other site 652103007365 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 652103007366 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 652103007367 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 652103007368 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 652103007369 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 652103007370 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 652103007371 4Fe-4S binding domain; Region: Fer4; pfam00037 652103007372 4Fe-4S binding domain; Region: Fer4; pfam00037 652103007373 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 652103007374 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 652103007375 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 652103007376 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 652103007377 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 652103007378 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 652103007379 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103007380 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 652103007381 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103007382 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 652103007383 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103007384 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 652103007385 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 652103007386 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 652103007387 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 652103007388 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 652103007389 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 652103007390 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103007391 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 652103007392 dimer interface [polypeptide binding]; other site 652103007393 substrate binding site [chemical binding]; other site 652103007394 metal binding site [ion binding]; metal-binding site 652103007395 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 652103007396 Protein of unknown function (DUF461); Region: DUF461; pfam04314 652103007397 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 652103007398 CopC domain; Region: CopC; pfam04234 652103007399 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 652103007400 prolyl-tRNA synthetase; Provisional; Region: PRK12325 652103007401 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 652103007402 dimer interface [polypeptide binding]; other site 652103007403 motif 1; other site 652103007404 active site 652103007405 motif 2; other site 652103007406 motif 3; other site 652103007407 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 652103007408 anticodon binding site; other site 652103007409 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 652103007410 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 652103007411 FtsX-like permease family; Region: FtsX; pfam02687 652103007412 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103007413 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 652103007414 Walker A/P-loop; other site 652103007415 ATP binding site [chemical binding]; other site 652103007416 Q-loop/lid; other site 652103007417 ABC transporter signature motif; other site 652103007418 Walker B; other site 652103007419 D-loop; other site 652103007420 H-loop/switch region; other site 652103007421 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 652103007422 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 652103007423 putative active site [active] 652103007424 putative PHP Thumb interface [polypeptide binding]; other site 652103007425 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 652103007426 generic binding surface I; other site 652103007427 generic binding surface II; other site 652103007428 Caspase domain; Region: Peptidase_C14; pfam00656 652103007429 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 652103007430 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 652103007431 rRNA interaction site [nucleotide binding]; other site 652103007432 S8 interaction site; other site 652103007433 putative laminin-1 binding site; other site 652103007434 Uncharacterized conserved protein [Function unknown]; Region: COG3743 652103007435 elongation factor Ts; Provisional; Region: tsf; PRK09377 652103007436 UBA/TS-N domain; Region: UBA; pfam00627 652103007437 Elongation factor TS; Region: EF_TS; pfam00889 652103007438 Elongation factor TS; Region: EF_TS; pfam00889 652103007439 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 652103007440 putative nucleotide binding site [chemical binding]; other site 652103007441 uridine monophosphate binding site [chemical binding]; other site 652103007442 homohexameric interface [polypeptide binding]; other site 652103007443 ribosome recycling factor; Reviewed; Region: frr; PRK00083 652103007444 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 652103007445 hinge region; other site 652103007446 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 652103007447 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 652103007448 catalytic residue [active] 652103007449 putative FPP diphosphate binding site; other site 652103007450 putative FPP binding hydrophobic cleft; other site 652103007451 dimer interface [polypeptide binding]; other site 652103007452 putative IPP diphosphate binding site; other site 652103007453 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 652103007454 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 652103007455 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 652103007456 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 652103007457 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 652103007458 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 652103007459 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 652103007460 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 652103007461 active site 652103007462 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 652103007463 protein binding site [polypeptide binding]; other site 652103007464 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 652103007465 putative substrate binding region [chemical binding]; other site 652103007466 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 652103007467 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 652103007468 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 652103007469 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 652103007470 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 652103007471 Surface antigen; Region: Bac_surface_Ag; pfam01103 652103007472 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 652103007473 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 652103007474 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 652103007475 trimer interface [polypeptide binding]; other site 652103007476 active site 652103007477 UDP-GlcNAc binding site [chemical binding]; other site 652103007478 lipid binding site [chemical binding]; lipid-binding site 652103007479 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 652103007480 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 652103007481 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 652103007482 active site 652103007483 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 652103007484 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 652103007485 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 652103007486 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 652103007487 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 652103007488 dimer interface [polypeptide binding]; other site 652103007489 active site 652103007490 citrylCoA binding site [chemical binding]; other site 652103007491 NADH binding [chemical binding]; other site 652103007492 cationic pore residues; other site 652103007493 oxalacetate/citrate binding site [chemical binding]; other site 652103007494 coenzyme A binding site [chemical binding]; other site 652103007495 catalytic triad [active] 652103007496 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 652103007497 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 652103007498 HIGH motif; other site 652103007499 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 652103007500 active site 652103007501 KMSKS motif; other site 652103007502 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 652103007503 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103007504 active site 652103007505 HIGH motif; other site 652103007506 nucleotide binding site [chemical binding]; other site 652103007507 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 652103007508 KMSKS motif; other site 652103007509 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 652103007510 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 652103007511 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 652103007512 Competence protein; Region: Competence; pfam03772 652103007513 LexA repressor; Validated; Region: PRK00215 652103007514 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 652103007515 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 652103007516 Catalytic site [active] 652103007517 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 652103007518 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 652103007519 dimer interface [polypeptide binding]; other site 652103007520 putative functional site; other site 652103007521 putative MPT binding site; other site 652103007522 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 652103007523 active site 652103007524 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 652103007525 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 652103007526 motif II; other site 652103007527 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 652103007528 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 652103007529 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103007530 ligand binding site [chemical binding]; other site 652103007531 PilZ domain; Region: PilZ; pfam07238 652103007532 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 652103007533 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 652103007534 putative dimer interface [polypeptide binding]; other site 652103007535 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 652103007536 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 652103007537 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103007538 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 652103007539 motif II; other site 652103007540 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 652103007541 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 652103007542 trimer interface [polypeptide binding]; other site 652103007543 dimer interface [polypeptide binding]; other site 652103007544 putative active site [active] 652103007545 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 652103007546 active site 652103007547 ribulose/triose binding site [chemical binding]; other site 652103007548 phosphate binding site [ion binding]; other site 652103007549 substrate (anthranilate) binding pocket [chemical binding]; other site 652103007550 product (indole) binding pocket [chemical binding]; other site 652103007551 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 652103007552 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 652103007553 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 652103007554 periplasmic folding chaperone; Provisional; Region: PRK10788 652103007555 SurA N-terminal domain; Region: SurA_N_3; cl07813 652103007556 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 652103007557 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 652103007558 triosephosphate isomerase; Provisional; Region: PRK14565 652103007559 substrate binding site [chemical binding]; other site 652103007560 dimer interface [polypeptide binding]; other site 652103007561 catalytic triad [active] 652103007562 Preprotein translocase SecG subunit; Region: SecG; pfam03840 652103007563 CTP synthetase; Validated; Region: pyrG; PRK05380 652103007564 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 652103007565 Catalytic site [active] 652103007566 active site 652103007567 UTP binding site [chemical binding]; other site 652103007568 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 652103007569 active site 652103007570 putative oxyanion hole; other site 652103007571 catalytic triad [active] 652103007572 PAAR motif; Region: PAAR_motif; pfam05488 652103007573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 652103007574 Protein of unknown function (DUF497); Region: DUF497; pfam04365 652103007575 NIPSNAP; Region: NIPSNAP; pfam07978 652103007576 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 652103007577 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 652103007578 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 652103007579 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 652103007580 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 652103007581 Ligand binding site; other site 652103007582 DXD motif; other site 652103007583 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 652103007584 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 652103007585 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 652103007586 enolase; Provisional; Region: eno; PRK00077 652103007587 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 652103007588 dimer interface [polypeptide binding]; other site 652103007589 metal binding site [ion binding]; metal-binding site 652103007590 substrate binding pocket [chemical binding]; other site 652103007591 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 652103007592 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103007593 NADP binding site [chemical binding]; other site 652103007594 dimer interface [polypeptide binding]; other site 652103007595 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 652103007596 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 652103007597 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103007598 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103007599 Predicted flavoprotein [General function prediction only]; Region: COG0431 652103007600 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 652103007601 Septum formation initiator; Region: DivIC; pfam04977 652103007602 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 652103007603 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 652103007604 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 652103007605 tetramer interface [polypeptide binding]; other site 652103007606 TPP-binding site [chemical binding]; other site 652103007607 heterodimer interface [polypeptide binding]; other site 652103007608 phosphorylation loop region [posttranslational modification] 652103007609 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 652103007610 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 652103007611 E3 interaction surface; other site 652103007612 lipoyl attachment site [posttranslational modification]; other site 652103007613 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 652103007614 alpha subunit interface [polypeptide binding]; other site 652103007615 TPP binding site [chemical binding]; other site 652103007616 heterodimer interface [polypeptide binding]; other site 652103007617 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103007618 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 652103007619 E3 interaction surface; other site 652103007620 lipoyl attachment site [posttranslational modification]; other site 652103007621 e3 binding domain; Region: E3_binding; pfam02817 652103007622 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 652103007623 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 652103007624 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 652103007625 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 652103007626 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103007627 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 652103007628 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 652103007629 Sel1-like repeats; Region: SEL1; smart00671 652103007630 Sel1-like repeats; Region: SEL1; smart00671 652103007631 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 652103007632 putative catalytic site [active] 652103007633 putative phosphate binding site [ion binding]; other site 652103007634 active site 652103007635 metal binding site A [ion binding]; metal-binding site 652103007636 DNA binding site [nucleotide binding] 652103007637 putative AP binding site [nucleotide binding]; other site 652103007638 putative metal binding site B [ion binding]; other site 652103007639 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103007640 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 652103007641 non-specific DNA binding site [nucleotide binding]; other site 652103007642 salt bridge; other site 652103007643 sequence-specific DNA binding site [nucleotide binding]; other site 652103007644 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 652103007645 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 652103007646 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 652103007647 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 652103007648 Zn2+ binding site [ion binding]; other site 652103007649 Mg2+ binding site [ion binding]; other site 652103007650 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 652103007651 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 652103007652 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 652103007653 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 652103007654 active site 652103007655 HIGH motif; other site 652103007656 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103007657 KMSK motif region; other site 652103007658 tRNA binding surface [nucleotide binding]; other site 652103007659 DALR anticodon binding domain; Region: DALR_1; smart00836 652103007660 anticodon binding site; other site 652103007661 Sporulation related domain; Region: SPOR; pfam05036 652103007662 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 652103007663 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 652103007664 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 652103007665 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 652103007666 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 652103007667 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 652103007668 sec-independent translocase; Provisional; Region: tatB; PRK00404 652103007669 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 652103007670 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 652103007671 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 652103007672 active site 652103007673 Autotransporter beta-domain; Region: Autotransporter; smart00869 652103007674 seryl-tRNA synthetase; Provisional; Region: PRK05431 652103007675 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 652103007676 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 652103007677 motif 1; other site 652103007678 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 652103007679 active site 652103007680 dimer interface [polypeptide binding]; other site 652103007681 motif 2; other site 652103007682 motif 3; other site 652103007683 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 652103007684 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 652103007685 active site 652103007686 Zn binding site [ion binding]; other site 652103007687 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 652103007688 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 652103007689 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103007690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103007691 active site 652103007692 phosphorylation site [posttranslational modification] 652103007693 intermolecular recognition site; other site 652103007694 dimerization interface [polypeptide binding]; other site 652103007695 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 652103007696 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 652103007697 S-adenosylmethionine binding site [chemical binding]; other site 652103007698 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 652103007699 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 652103007700 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 652103007701 Peptidase family M23; Region: Peptidase_M23; pfam01551 652103007702 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 652103007703 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 652103007704 Protein of unknown function (DUF815); Region: DUF815; pfam05673 652103007705 Walker A motif; other site 652103007706 ATP binding site [chemical binding]; other site 652103007707 Walker B motif; other site 652103007708 Preprotein translocase subunit; Region: YajC; pfam02699 652103007709 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 652103007710 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 652103007711 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 652103007712 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 652103007713 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 652103007714 Protein export membrane protein; Region: SecD_SecF; pfam02355 652103007715 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 652103007716 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 652103007717 substrate binding pocket [chemical binding]; other site 652103007718 substrate-Mg2+ binding site; other site 652103007719 aspartate-rich region 2; other site 652103007720 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 652103007721 Glucose inhibited division protein A; Region: GIDA; pfam01134 652103007722 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 652103007723 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 652103007724 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 652103007725 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103007726 CoenzymeA binding site [chemical binding]; other site 652103007727 subunit interaction site [polypeptide binding]; other site 652103007728 PHB binding site; other site 652103007729 Predicted acetyltransferase [General function prediction only]; Region: COG2388 652103007730 Ion channel; Region: Ion_trans_2; pfam07885 652103007731 Prokaryotic RING finger family 1; Region: Prok-RING_1; pfam14446 652103007732 Protein of unknown function (DUF433); Region: DUF433; pfam04255 652103007733 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 652103007734 Protein of unknown function (DUF433); Region: DUF433; pfam04255 652103007735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 652103007736 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 652103007737 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 652103007738 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 652103007739 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 652103007740 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103007741 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 652103007742 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 652103007743 dimer interface [polypeptide binding]; other site 652103007744 ssDNA binding site [nucleotide binding]; other site 652103007745 tetramer (dimer of dimers) interface [polypeptide binding]; other site 652103007746 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 652103007747 Domain of unknown function DUF21; Region: DUF21; pfam01595 652103007748 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 652103007749 Transporter associated domain; Region: CorC_HlyC; smart01091 652103007750 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 652103007751 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 652103007752 homodimer interface [polypeptide binding]; other site 652103007753 metal binding site [ion binding]; metal-binding site 652103007754 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 652103007755 homodimer interface [polypeptide binding]; other site 652103007756 active site 652103007757 putative chemical substrate binding site [chemical binding]; other site 652103007758 metal binding site [ion binding]; metal-binding site 652103007759 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 652103007760 Ligand Binding Site [chemical binding]; other site 652103007761 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 652103007762 Beta-lactamase; Region: Beta-lactamase; pfam00144 652103007763 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 652103007764 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 652103007765 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 652103007766 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 652103007767 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 652103007768 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 652103007769 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 652103007770 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 652103007771 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 652103007772 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 652103007773 substrate binding site [chemical binding]; other site 652103007774 oxyanion hole (OAH) forming residues; other site 652103007775 trimer interface [polypeptide binding]; other site 652103007776 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 652103007777 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 652103007778 Part of AAA domain; Region: AAA_19; pfam13245 652103007779 Family description; Region: UvrD_C_2; pfam13538 652103007780 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 652103007781 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 652103007782 dimer interface [polypeptide binding]; other site 652103007783 pyridoxamine kinase; Validated; Region: PRK05756 652103007784 pyridoxal binding site [chemical binding]; other site 652103007785 ATP binding site [chemical binding]; other site 652103007786 benzoate transporter; Region: benE; TIGR00843 652103007787 Benzoate membrane transport protein; Region: BenE; pfam03594 652103007788 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 652103007789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103007790 DNA-binding site [nucleotide binding]; DNA binding site 652103007791 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 652103007792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103007793 homodimer interface [polypeptide binding]; other site 652103007794 catalytic residue [active] 652103007795 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 652103007796 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 652103007797 dimer interface [polypeptide binding]; other site 652103007798 active site 652103007799 glycine-pyridoxal phosphate binding site [chemical binding]; other site 652103007800 folate binding site [chemical binding]; other site 652103007801 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 652103007802 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103007803 catalytic residue [active] 652103007804 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 652103007805 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 652103007806 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 652103007807 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 652103007808 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103007809 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 652103007810 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 652103007811 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 652103007812 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103007813 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 652103007814 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 652103007815 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103007816 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 652103007817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103007818 AAA domain; Region: AAA_27; pfam13514 652103007819 Walker A/P-loop; other site 652103007820 ATP binding site [chemical binding]; other site 652103007821 Q-loop/lid; other site 652103007822 ABC transporter signature motif; other site 652103007823 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 652103007824 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103007825 active site 652103007826 metal binding site [ion binding]; metal-binding site 652103007827 DNA binding site [nucleotide binding] 652103007828 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 652103007829 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 652103007830 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103007831 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 652103007832 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 652103007833 DctM-like transporters; Region: DctM; pfam06808 652103007834 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 652103007835 acyl-CoA synthetase; Validated; Region: PRK08162 652103007836 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 652103007837 acyl-activating enzyme (AAE) consensus motif; other site 652103007838 putative active site [active] 652103007839 AMP binding site [chemical binding]; other site 652103007840 putative CoA binding site [chemical binding]; other site 652103007841 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 652103007842 putative hydrolase; Provisional; Region: PRK02113 652103007843 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 652103007844 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 652103007845 active site 652103007846 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 652103007847 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 652103007848 active site 652103007849 HIGH motif; other site 652103007850 KMSKS motif; other site 652103007851 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 652103007852 tRNA binding surface [nucleotide binding]; other site 652103007853 anticodon binding site; other site 652103007854 DNA polymerase III subunit delta'; Validated; Region: PRK07471 652103007855 DNA polymerase III subunit delta'; Validated; Region: PRK08485 652103007856 thymidylate kinase; Validated; Region: tmk; PRK00698 652103007857 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 652103007858 TMP-binding site; other site 652103007859 ATP-binding site [chemical binding]; other site 652103007860 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 652103007861 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 652103007862 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 652103007863 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103007864 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 652103007865 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 652103007866 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 652103007867 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 652103007868 Domain of unknown function DUF20; Region: UPF0118; pfam01594 652103007869 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 652103007870 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103007871 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103007872 metal binding site [ion binding]; metal-binding site 652103007873 active site 652103007874 I-site; other site 652103007875 Transposase domain (DUF772); Region: DUF772; pfam05598 652103007876 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 652103007877 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 652103007878 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 652103007879 23S rRNA interface [nucleotide binding]; other site 652103007880 L3 interface [polypeptide binding]; other site 652103007881 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103007882 CoenzymeA binding site [chemical binding]; other site 652103007883 subunit interaction site [polypeptide binding]; other site 652103007884 PHB binding site; other site 652103007885 enoyl-CoA hydratase; Validated; Region: PRK08139 652103007886 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 652103007887 substrate binding site [chemical binding]; other site 652103007888 oxyanion hole (OAH) forming residues; other site 652103007889 trimer interface [polypeptide binding]; other site 652103007890 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 652103007891 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 652103007892 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 652103007893 homodimer interface [polypeptide binding]; other site 652103007894 substrate-cofactor binding pocket; other site 652103007895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103007896 catalytic residue [active] 652103007897 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 652103007898 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 652103007899 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 652103007900 putative NAD(P) binding site [chemical binding]; other site 652103007901 catalytic Zn binding site [ion binding]; other site 652103007902 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 652103007903 classical (c) SDRs; Region: SDR_c; cd05233 652103007904 NAD(P) binding site [chemical binding]; other site 652103007905 active site 652103007906 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 652103007907 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103007908 PYR/PP interface [polypeptide binding]; other site 652103007909 dimer interface [polypeptide binding]; other site 652103007910 TPP binding site [chemical binding]; other site 652103007911 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 652103007912 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 652103007913 TPP-binding site; other site 652103007914 dimer interface [polypeptide binding]; other site 652103007915 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103007916 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103007917 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 652103007918 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 652103007919 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 652103007920 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 652103007921 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 652103007922 dimerization interface [polypeptide binding]; other site 652103007923 DPS ferroxidase diiron center [ion binding]; other site 652103007924 ion pore; other site 652103007925 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 652103007926 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 652103007927 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 652103007928 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 652103007929 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 652103007930 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 652103007931 putative active site [active] 652103007932 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 652103007933 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 652103007934 Chain length determinant protein; Region: Wzz; pfam02706 652103007935 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 652103007936 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 652103007937 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 652103007938 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 652103007939 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 652103007940 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 652103007941 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 652103007942 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 652103007943 DNA binding residues [nucleotide binding] 652103007944 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 652103007945 IHF dimer interface [polypeptide binding]; other site 652103007946 IHF - DNA interface [nucleotide binding]; other site 652103007947 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 652103007948 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 652103007949 dimer interface [polypeptide binding]; other site 652103007950 active site 652103007951 CoA binding pocket [chemical binding]; other site 652103007952 putative phosphate acyltransferase; Provisional; Region: PRK05331 652103007953 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 652103007954 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; pfam03981 652103007955 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 652103007956 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 652103007957 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103007958 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 652103007959 Spc7 kinetochore protein; Region: Spc7; pfam08317 652103007960 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 652103007961 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 652103007962 thiamine monophosphate kinase; Provisional; Region: PRK05731 652103007963 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 652103007964 ATP binding site [chemical binding]; other site 652103007965 dimerization interface [polypeptide binding]; other site 652103007966 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 652103007967 putative RNA binding site [nucleotide binding]; other site 652103007968 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 652103007969 homopentamer interface [polypeptide binding]; other site 652103007970 active site 652103007971 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 652103007972 Lumazine binding domain; Region: Lum_binding; pfam00677 652103007973 Lumazine binding domain; Region: Lum_binding; pfam00677 652103007974 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 652103007975 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 652103007976 catalytic motif [active] 652103007977 Zn binding site [ion binding]; other site 652103007978 RibD C-terminal domain; Region: RibD_C; cl17279 652103007979 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 652103007980 ATP cone domain; Region: ATP-cone; pfam03477 652103007981 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 652103007982 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 652103007983 dimer interface [polypeptide binding]; other site 652103007984 active site 652103007985 glycine-pyridoxal phosphate binding site [chemical binding]; other site 652103007986 folate binding site [chemical binding]; other site 652103007987 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 652103007988 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 652103007989 putative active site [active] 652103007990 Cupin domain; Region: Cupin_2; cl17218 652103007991 putative S-transferase; Provisional; Region: PRK11752 652103007992 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 652103007993 C-terminal domain interface [polypeptide binding]; other site 652103007994 GSH binding site (G-site) [chemical binding]; other site 652103007995 dimer interface [polypeptide binding]; other site 652103007996 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 652103007997 dimer interface [polypeptide binding]; other site 652103007998 N-terminal domain interface [polypeptide binding]; other site 652103007999 active site 652103008000 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 652103008001 apolar tunnel; other site 652103008002 heme binding site [chemical binding]; other site 652103008003 dimerization interface [polypeptide binding]; other site 652103008004 Domain of unknown function (DUF4142); Region: DUF4142; cl17876 652103008005 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103008006 MarR family; Region: MarR_2; cl17246 652103008007 acyl-CoA synthetase; Validated; Region: PRK06188 652103008008 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103008009 acyl-activating enzyme (AAE) consensus motif; other site 652103008010 putative AMP binding site [chemical binding]; other site 652103008011 putative active site [active] 652103008012 putative CoA binding site [chemical binding]; other site 652103008013 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 652103008014 dimer interface [polypeptide binding]; other site 652103008015 allosteric magnesium binding site [ion binding]; other site 652103008016 active site 652103008017 aspartate-rich active site metal binding site; other site 652103008018 Schiff base residues; other site 652103008019 Predicted membrane protein/domain [Function unknown]; Region: COG1714 652103008020 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 652103008021 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 652103008022 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 652103008023 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 652103008024 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103008025 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103008026 Fusaric acid resistance protein family; Region: FUSC; pfam04632 652103008027 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 652103008028 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 652103008029 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 652103008030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103008031 manganese transport protein MntH; Reviewed; Region: PRK00701 652103008032 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 652103008033 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 652103008034 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; cd00625 652103008035 transmembrane helices; other site 652103008036 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 652103008037 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 652103008038 CAP-like domain; other site 652103008039 active site 652103008040 primary dimer interface [polypeptide binding]; other site 652103008041 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103008042 Predicted transcriptional regulators [Transcription]; Region: COG1733 652103008043 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 652103008044 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 652103008045 NmrA-like family; Region: NmrA; pfam05368 652103008046 NADP binding site [chemical binding]; other site 652103008047 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103008048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103008049 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 652103008050 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103008051 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103008052 N-terminal domain interface [polypeptide binding]; other site 652103008053 dimer interface [polypeptide binding]; other site 652103008054 substrate binding pocket (H-site) [chemical binding]; other site 652103008055 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 652103008056 Recombination protein O N terminal; Region: RecO_N; pfam11967 652103008057 Recombination protein O C terminal; Region: RecO_C; pfam02565 652103008058 GTPase Era; Reviewed; Region: era; PRK00089 652103008059 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 652103008060 G1 box; other site 652103008061 GTP/Mg2+ binding site [chemical binding]; other site 652103008062 Switch I region; other site 652103008063 G2 box; other site 652103008064 Switch II region; other site 652103008065 G3 box; other site 652103008066 G4 box; other site 652103008067 G5 box; other site 652103008068 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 652103008069 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 652103008070 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 652103008071 dimerization interface [polypeptide binding]; other site 652103008072 active site 652103008073 metal binding site [ion binding]; metal-binding site 652103008074 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 652103008075 dsRNA binding site [nucleotide binding]; other site 652103008076 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 652103008077 Catalytic site [active] 652103008078 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 652103008079 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 652103008080 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 652103008081 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 652103008082 active site 652103008083 hydrophilic channel; other site 652103008084 dimerization interface [polypeptide binding]; other site 652103008085 catalytic residues [active] 652103008086 active site lid [active] 652103008087 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 652103008088 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 652103008089 Zn2+ binding site [ion binding]; other site 652103008090 Mg2+ binding site [ion binding]; other site 652103008091 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 652103008092 synthetase active site [active] 652103008093 NTP binding site [chemical binding]; other site 652103008094 metal binding site [ion binding]; metal-binding site 652103008095 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 652103008096 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 652103008097 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 652103008098 LabA_like proteins; Region: LabA; cd10911 652103008099 Uncharacterized conserved protein [Function unknown]; Region: COG1432 652103008100 putative metal binding site [ion binding]; other site 652103008101 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 652103008102 Fe-S cluster binding site [ion binding]; other site 652103008103 DNA binding site [nucleotide binding] 652103008104 active site 652103008105 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 652103008106 catalytic triad [active] 652103008107 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 652103008108 SmpB-tmRNA interface; other site 652103008109 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 652103008110 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 652103008111 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 652103008112 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 652103008113 dimer interface [polypeptide binding]; other site 652103008114 active site 652103008115 catalytic residue [active] 652103008116 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 652103008117 hypothetical protein; Validated; Region: PRK08245 652103008118 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 652103008119 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 652103008120 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 652103008121 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 652103008122 putative active site [active] 652103008123 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 652103008124 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103008125 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 652103008126 Walker A/P-loop; other site 652103008127 ATP binding site [chemical binding]; other site 652103008128 Q-loop/lid; other site 652103008129 ABC transporter signature motif; other site 652103008130 Walker B; other site 652103008131 D-loop; other site 652103008132 H-loop/switch region; other site 652103008133 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103008134 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 652103008135 dimer interface [polypeptide binding]; other site 652103008136 conserved gate region; other site 652103008137 putative PBP binding loops; other site 652103008138 ABC-ATPase subunit interface; other site 652103008139 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 652103008140 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 652103008141 membrane-bound complex binding site; other site 652103008142 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103008143 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103008144 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 652103008145 dimerization interface [polypeptide binding]; other site 652103008146 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 652103008147 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 652103008148 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 652103008149 FeS/SAM binding site; other site 652103008150 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 652103008151 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 652103008152 NADP binding site [chemical binding]; other site 652103008153 dimer interface [polypeptide binding]; other site 652103008154 Integral membrane protein TerC family; Region: TerC; cl10468 652103008155 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 652103008156 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 652103008157 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 652103008158 Predicted permeases [General function prediction only]; Region: COG0679 652103008159 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 652103008160 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 652103008161 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 652103008162 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 652103008163 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103008164 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103008165 acyl-activating enzyme (AAE) consensus motif; other site 652103008166 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 652103008167 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 652103008168 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 652103008169 ATP binding site [chemical binding]; other site 652103008170 putative Mg++ binding site [ion binding]; other site 652103008171 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 652103008172 nucleotide binding region [chemical binding]; other site 652103008173 ATP-binding site [chemical binding]; other site 652103008174 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 652103008175 Uncharacterized conserved protein [Function unknown]; Region: COG2938 652103008176 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 652103008177 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 652103008178 generic binding surface II; other site 652103008179 ssDNA binding site; other site 652103008180 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 652103008181 ATP binding site [chemical binding]; other site 652103008182 putative Mg++ binding site [ion binding]; other site 652103008183 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 652103008184 nucleotide binding region [chemical binding]; other site 652103008185 ATP-binding site [chemical binding]; other site 652103008186 Uncharacterized conserved protein [Function unknown]; Region: COG2928 652103008187 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 652103008188 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 652103008189 glutaminase active site [active] 652103008190 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 652103008191 dimer interface [polypeptide binding]; other site 652103008192 active site 652103008193 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 652103008194 dimer interface [polypeptide binding]; other site 652103008195 active site 652103008196 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 652103008197 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 652103008198 Substrate binding site; other site 652103008199 Mg++ binding site; other site 652103008200 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 652103008201 active site 652103008202 substrate binding site [chemical binding]; other site 652103008203 CoA binding site [chemical binding]; other site 652103008204 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 652103008205 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 652103008206 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 652103008207 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 652103008208 active site 652103008209 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103008210 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103008211 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 652103008212 homotrimer interaction site [polypeptide binding]; other site 652103008213 putative active site [active] 652103008214 EamA-like transporter family; Region: EamA; pfam00892 652103008215 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 652103008216 EamA-like transporter family; Region: EamA; pfam00892 652103008217 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 652103008218 camphor resistance protein CrcB; Provisional; Region: PRK14203 652103008219 CrcB-like protein; Region: CRCB; cl09114 652103008220 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 652103008221 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 652103008222 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 652103008223 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 652103008224 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 652103008225 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 652103008226 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 652103008227 active site 652103008228 Gram-negative bacterial tonB protein; Region: TonB; cl10048 652103008229 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 652103008230 active site 652103008231 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 652103008232 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 652103008233 active site 652103008234 (T/H)XGH motif; other site 652103008235 DNA gyrase subunit A; Validated; Region: PRK05560 652103008236 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 652103008237 CAP-like domain; other site 652103008238 active site 652103008239 primary dimer interface [polypeptide binding]; other site 652103008240 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103008241 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103008242 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103008243 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103008244 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103008245 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 652103008246 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 652103008247 HflX GTPase family; Region: HflX; cd01878 652103008248 G1 box; other site 652103008249 GTP/Mg2+ binding site [chemical binding]; other site 652103008250 Switch I region; other site 652103008251 G2 box; other site 652103008252 G3 box; other site 652103008253 Switch II region; other site 652103008254 G4 box; other site 652103008255 G5 box; other site 652103008256 bacterial Hfq-like; Region: Hfq; cd01716 652103008257 hexamer interface [polypeptide binding]; other site 652103008258 Sm1 motif; other site 652103008259 RNA binding site [nucleotide binding]; other site 652103008260 Sm2 motif; other site 652103008261 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 652103008262 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 652103008263 homodimer interface [polypeptide binding]; other site 652103008264 substrate-cofactor binding pocket; other site 652103008265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103008266 catalytic residue [active] 652103008267 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 652103008268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103008269 active site 652103008270 phosphorylation site [posttranslational modification] 652103008271 intermolecular recognition site; other site 652103008272 dimerization interface [polypeptide binding]; other site 652103008273 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 652103008274 Walker A motif; other site 652103008275 ATP binding site [chemical binding]; other site 652103008276 Walker B motif; other site 652103008277 arginine finger; other site 652103008278 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 652103008279 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 652103008280 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 652103008281 dimerization interface [polypeptide binding]; other site 652103008282 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 652103008283 putative active site [active] 652103008284 heme pocket [chemical binding]; other site 652103008285 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 652103008286 dimer interface [polypeptide binding]; other site 652103008287 phosphorylation site [posttranslational modification] 652103008288 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 652103008289 ATP binding site [chemical binding]; other site 652103008290 Mg2+ binding site [ion binding]; other site 652103008291 G-X-G motif; other site 652103008292 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 652103008293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103008294 active site 652103008295 phosphorylation site [posttranslational modification] 652103008296 intermolecular recognition site; other site 652103008297 dimerization interface [polypeptide binding]; other site 652103008298 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 652103008299 Walker A motif; other site 652103008300 ATP binding site [chemical binding]; other site 652103008301 Walker B motif; other site 652103008302 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 652103008303 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 652103008304 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 652103008305 putative active site [active] 652103008306 heme pocket [chemical binding]; other site 652103008307 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 652103008308 dimer interface [polypeptide binding]; other site 652103008309 phosphorylation site [posttranslational modification] 652103008310 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 652103008311 ATP binding site [chemical binding]; other site 652103008312 Mg2+ binding site [ion binding]; other site 652103008313 G-X-G motif; other site 652103008314 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 652103008315 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 652103008316 FMN binding site [chemical binding]; other site 652103008317 active site 652103008318 catalytic residues [active] 652103008319 substrate binding site [chemical binding]; other site 652103008320 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 652103008321 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 652103008322 substrate binding site; other site 652103008323 dimer interface; other site 652103008324 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 652103008325 homotrimer interaction site [polypeptide binding]; other site 652103008326 zinc binding site [ion binding]; other site 652103008327 CDP-binding sites; other site 652103008328 Competence-damaged protein; Region: CinA; pfam02464 652103008329 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 652103008330 putative coenzyme Q binding site [chemical binding]; other site 652103008331 lipoyl synthase; Provisional; Region: PRK05481 652103008332 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 652103008333 FeS/SAM binding site; other site 652103008334 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 652103008335 active site 652103008336 DNA binding site [nucleotide binding] 652103008337 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 652103008338 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 652103008339 HIGH motif; other site 652103008340 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 652103008341 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 652103008342 active site 652103008343 KMSKS motif; other site 652103008344 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 652103008345 tRNA binding surface [nucleotide binding]; other site 652103008346 anticodon binding site; other site 652103008347 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 652103008348 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 652103008349 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 652103008350 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 652103008351 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 652103008352 Methyltransferase domain; Region: Methyltransf_18; pfam12847 652103008353 active site residue [active] 652103008354 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 652103008355 DTW domain; Region: DTW; cl01221 652103008356 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 652103008357 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 652103008358 Protein export membrane protein; Region: SecD_SecF; cl14618 652103008359 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103008360 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103008361 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103008362 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 652103008363 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 652103008364 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103008365 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 652103008366 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 652103008367 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 652103008368 S-adenosylmethionine binding site [chemical binding]; other site 652103008369 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 652103008370 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 652103008371 dimer interface [polypeptide binding]; other site 652103008372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103008373 catalytic residue [active] 652103008374 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 652103008375 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 652103008376 Walker A/P-loop; other site 652103008377 ATP binding site [chemical binding]; other site 652103008378 Q-loop/lid; other site 652103008379 ABC transporter signature motif; other site 652103008380 Walker B; other site 652103008381 D-loop; other site 652103008382 H-loop/switch region; other site 652103008383 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 652103008384 dimer interface [polypeptide binding]; other site 652103008385 conserved gate region; other site 652103008386 putative PBP binding loops; other site 652103008387 ABC-ATPase subunit interface; other site 652103008388 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 652103008389 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 652103008390 conserved gate region; other site 652103008391 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 652103008392 dimer interface [polypeptide binding]; other site 652103008393 ABC-ATPase subunit interface; other site 652103008394 putative PBP binding loops; other site 652103008395 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 652103008396 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 652103008397 substrate binding pocket [chemical binding]; other site 652103008398 membrane-bound complex binding site; other site 652103008399 hinge residues; other site 652103008400 cystathionine beta-lyase; Provisional; Region: PRK05967 652103008401 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 652103008402 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103008403 catalytic residue [active] 652103008404 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 652103008405 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 652103008406 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 652103008407 Ligand binding site; other site 652103008408 Putative Catalytic site; other site 652103008409 DXD motif; other site 652103008410 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 652103008411 active site 652103008412 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 652103008413 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 652103008414 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 652103008415 Transglycosylase; Region: Transgly; pfam00912 652103008416 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 652103008417 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 652103008418 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 652103008419 MG2 domain; Region: A2M_N; pfam01835 652103008420 Alpha-2-macroglobulin family; Region: A2M; pfam00207 652103008421 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 652103008422 surface patch; other site 652103008423 thioester region; other site 652103008424 specificity defining residues; other site 652103008425 PEGA domain; Region: PEGA; pfam08308 652103008426 Uncharacterized conserved protein [Function unknown]; Region: COG2966 652103008427 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 652103008428 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 652103008429 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 652103008430 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 652103008431 active site 652103008432 catalytic residues [active] 652103008433 metal binding site [ion binding]; metal-binding site 652103008434 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 652103008435 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103008436 ATP-grasp domain; Region: ATP-grasp_4; cl17255 652103008437 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 652103008438 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 652103008439 carboxyltransferase (CT) interaction site; other site 652103008440 biotinylation site [posttranslational modification]; other site 652103008441 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 652103008442 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 652103008443 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 652103008444 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 652103008445 OpgC protein; Region: OpgC_C; pfam10129 652103008446 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103008447 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103008448 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 652103008449 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 652103008450 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 652103008451 active site 652103008452 DNA binding site [nucleotide binding] 652103008453 Int/Topo IB signature motif; other site 652103008454 integrase; Provisional; Region: int; PHA02601 652103008455 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 652103008456 active site 652103008457 catalytic residues [active] 652103008458 DNA binding site [nucleotide binding] 652103008459 Int/Topo IB signature motif; other site 652103008460 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 652103008461 Winged helix-turn helix; Region: HTH_29; pfam13551 652103008462 DNA-binding interface [nucleotide binding]; DNA binding site 652103008463 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103008464 Helix-turn-helix domain; Region: HTH_38; pfam13936 652103008465 Integrase core domain; Region: rve; pfam00665 652103008466 Integrase core domain; Region: rve_3; pfam13683 652103008467 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 652103008468 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 652103008469 Phage Tail Collar Domain; Region: Collar; pfam07484 652103008470 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 652103008471 large terminase protein; Provisional; Region: 17; PHA02533 652103008472 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 652103008473 catalytic residues [active] 652103008474 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 652103008475 active site 652103008476 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 652103008477 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 652103008478 metal binding triad [ion binding]; metal-binding site 652103008479 exonuclease; Region: PHA00439 652103008480 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 652103008481 putative active site [active] 652103008482 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_B; cd08643 652103008483 active site 652103008484 DNA binding site [nucleotide binding] 652103008485 catalytic site [active] 652103008486 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 652103008487 active site 652103008488 metal binding site [ion binding]; metal-binding site 652103008489 interdomain interaction site; other site 652103008490 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 652103008491 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 652103008492 Walker A motif; other site 652103008493 ATP binding site [chemical binding]; other site 652103008494 Walker B motif; other site 652103008495 HNH endonuclease; Region: HNH_3; pfam13392 652103008496 Helix-turn-helix domain; Region: HTH_39; pfam14090 652103008497 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 652103008498 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 652103008499 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 652103008500 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 652103008501 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 652103008502 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 652103008503 Phage endonuclease I; Region: Phage_endo_I; cl11622 652103008504 T3/T7-like RNA polymerase; Region: PHA00452 652103008505 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 652103008506 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 652103008507 DNA-binding site [nucleotide binding]; DNA binding site 652103008508 RNA-binding motif; other site 652103008509 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 652103008510 DNA-binding site [nucleotide binding]; DNA binding site 652103008511 RNA-binding motif; other site 652103008512 NAD-dependent deacetylase; Provisional; Region: PRK00481 652103008513 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 652103008514 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103008515 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 652103008516 dimer interface [polypeptide binding]; other site 652103008517 active site 652103008518 metal binding site [ion binding]; metal-binding site 652103008519 glutathione binding site [chemical binding]; other site 652103008520 PilZ domain; Region: PilZ; pfam07238 652103008521 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 652103008522 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 652103008523 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 652103008524 FeS/SAM binding site; other site 652103008525 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 652103008526 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 652103008527 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 652103008528 motif 1; other site 652103008529 dimer interface [polypeptide binding]; other site 652103008530 active site 652103008531 motif 2; other site 652103008532 motif 3; other site 652103008533 elongation factor P; Validated; Region: PRK00529 652103008534 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 652103008535 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 652103008536 RNA binding site [nucleotide binding]; other site 652103008537 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 652103008538 RNA binding site [nucleotide binding]; other site 652103008539 putative lipid kinase; Reviewed; Region: PRK13057 652103008540 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 652103008541 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 652103008542 lytic murein transglycosylase; Region: MltB_2; TIGR02283 652103008543 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 652103008544 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103008545 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 652103008546 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 652103008547 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 652103008548 DHH family; Region: DHH; pfam01368 652103008549 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 652103008550 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 652103008551 motif II; other site 652103008552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103008553 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 652103008554 Coenzyme A binding pocket [chemical binding]; other site 652103008555 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 652103008556 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 652103008557 putative active site [active] 652103008558 homoserine dehydrogenase; Provisional; Region: PRK06349 652103008559 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 652103008560 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 652103008561 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 652103008562 aminotransferase; Validated; Region: PRK09148 652103008563 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 652103008564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103008565 homodimer interface [polypeptide binding]; other site 652103008566 catalytic residue [active] 652103008567 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 652103008568 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 652103008569 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 652103008570 Amidase; Region: Amidase; cl11426 652103008571 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103008572 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 652103008573 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103008574 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 652103008575 dimer interface [polypeptide binding]; other site 652103008576 conserved gate region; other site 652103008577 putative PBP binding loops; other site 652103008578 ABC-ATPase subunit interface; other site 652103008579 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103008580 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103008581 Walker A/P-loop; other site 652103008582 ATP binding site [chemical binding]; other site 652103008583 Q-loop/lid; other site 652103008584 ABC transporter signature motif; other site 652103008585 Walker B; other site 652103008586 D-loop; other site 652103008587 H-loop/switch region; other site 652103008588 Transcriptional regulators [Transcription]; Region: GntR; COG1802 652103008589 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103008590 DNA-binding site [nucleotide binding]; DNA binding site 652103008591 FCD domain; Region: FCD; pfam07729 652103008592 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 652103008593 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 652103008594 Radical SAM superfamily; Region: Radical_SAM; pfam04055 652103008595 FeS/SAM binding site; other site 652103008596 Methyltransferase domain; Region: Methyltransf_23; pfam13489 652103008597 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 652103008598 S-adenosylmethionine binding site [chemical binding]; other site 652103008599 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 652103008600 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 652103008601 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 652103008602 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 652103008603 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103008604 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 652103008605 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 652103008606 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 652103008607 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 652103008608 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 652103008609 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 652103008610 Mg2+ binding site [ion binding]; other site 652103008611 G-X-G motif; other site 652103008612 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 652103008613 anchoring element; other site 652103008614 dimer interface [polypeptide binding]; other site 652103008615 ATP binding site [chemical binding]; other site 652103008616 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 652103008617 active site 652103008618 putative metal-binding site [ion binding]; other site 652103008619 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 652103008620 Caspase domain; Region: Peptidase_C14; pfam00656 652103008621 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 652103008622 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103008623 dimer interface [polypeptide binding]; other site 652103008624 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103008625 putative CheW interface [polypeptide binding]; other site 652103008626 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103008627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103008628 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 652103008629 DEAD-like helicases superfamily; Region: DEXDc; smart00487 652103008630 ATP binding site [chemical binding]; other site 652103008631 Mg++ binding site [ion binding]; other site 652103008632 motif III; other site 652103008633 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 652103008634 nucleotide binding region [chemical binding]; other site 652103008635 ATP-binding site [chemical binding]; other site 652103008636 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103008637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103008638 metal binding site [ion binding]; metal-binding site 652103008639 active site 652103008640 I-site; other site 652103008641 TfoX N-terminal domain; Region: TfoX_N; pfam04993 652103008642 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 652103008643 homotrimer interaction site [polypeptide binding]; other site 652103008644 putative active site [active] 652103008645 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 652103008646 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 652103008647 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_13; cd08354 652103008648 putative metal binding site [ion binding]; other site 652103008649 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103008650 Domain of unknown function DUF59; Region: DUF59; cl00941 652103008651 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 652103008652 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 652103008653 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103008654 catalytic residue [active] 652103008655 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 652103008656 FeS assembly protein SufD; Region: sufD; TIGR01981 652103008657 FeS assembly ATPase SufC; Region: sufC; TIGR01978 652103008658 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 652103008659 Walker A/P-loop; other site 652103008660 ATP binding site [chemical binding]; other site 652103008661 Q-loop/lid; other site 652103008662 ABC transporter signature motif; other site 652103008663 Walker B; other site 652103008664 D-loop; other site 652103008665 H-loop/switch region; other site 652103008666 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 652103008667 putative ABC transporter; Region: ycf24; CHL00085 652103008668 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 652103008669 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 652103008670 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103008671 catalytic residue [active] 652103008672 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 652103008673 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 652103008674 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 652103008675 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 652103008676 active site 652103008677 HIGH motif; other site 652103008678 dimer interface [polypeptide binding]; other site 652103008679 KMSKS motif; other site 652103008680 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 652103008681 RNA binding surface [nucleotide binding]; other site 652103008682 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103008683 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103008684 putative substrate translocation pore; other site 652103008685 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103008686 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 652103008687 Protein of unknown function; Region: DUF3971; pfam13116 652103008688 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 652103008689 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 652103008690 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 652103008691 catalytic triad [active] 652103008692 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 652103008693 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 652103008694 Peptidase family M23; Region: Peptidase_M23; pfam01551 652103008695 peptide chain release factor 2; Validated; Region: prfB; PRK00578 652103008696 This domain is found in peptide chain release factors; Region: PCRF; smart00937 652103008697 RF-1 domain; Region: RF-1; pfam00472 652103008698 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 652103008699 Transglycosylase; Region: Transgly; pfam00912 652103008700 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 652103008701 AMIN domain; Region: AMIN; pfam11741 652103008702 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 652103008703 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 652103008704 active site 652103008705 metal binding site [ion binding]; metal-binding site 652103008706 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 652103008707 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 652103008708 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 652103008709 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 652103008710 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 652103008711 BioY family; Region: BioY; pfam02632 652103008712 aspartate aminotransferase; Provisional; Region: PRK05764 652103008713 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 652103008714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103008715 homodimer interface [polypeptide binding]; other site 652103008716 catalytic residue [active] 652103008717 Peptidase family M48; Region: Peptidase_M48; cl12018 652103008718 Tetratricopeptide repeat; Region: TPR_16; pfam13432 652103008719 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 652103008720 binding surface 652103008721 TPR motif; other site 652103008722 BA14K-like protein; Region: BA14K; pfam07886 652103008723 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 652103008724 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 652103008725 dimer interface [polypeptide binding]; other site 652103008726 decamer (pentamer of dimers) interface [polypeptide binding]; other site 652103008727 catalytic triad [active] 652103008728 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 652103008729 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 652103008730 catalytic residues [active] 652103008731 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103008732 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103008733 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 652103008734 Cation efflux family; Region: Cation_efflux; cl00316 652103008735 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 652103008736 Dehydroquinase class II; Region: DHquinase_II; pfam01220 652103008737 trimer interface [polypeptide binding]; other site 652103008738 active site 652103008739 dimer interface [polypeptide binding]; other site 652103008740 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 652103008741 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 652103008742 carboxyltransferase (CT) interaction site; other site 652103008743 biotinylation site [posttranslational modification]; other site 652103008744 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 652103008745 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103008746 ATP-grasp domain; Region: ATP-grasp_4; cl17255 652103008747 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 652103008748 CHASE3 domain; Region: CHASE3; pfam05227 652103008749 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103008750 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 652103008751 ATP binding site [chemical binding]; other site 652103008752 Mg2+ binding site [ion binding]; other site 652103008753 G-X-G motif; other site 652103008754 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103008755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103008756 active site 652103008757 phosphorylation site [posttranslational modification] 652103008758 intermolecular recognition site; other site 652103008759 dimerization interface [polypeptide binding]; other site 652103008760 Response regulator receiver domain; Region: Response_reg; pfam00072 652103008761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103008762 active site 652103008763 phosphorylation site [posttranslational modification] 652103008764 intermolecular recognition site; other site 652103008765 dimerization interface [polypeptide binding]; other site 652103008766 Histidine kinase; Region: HisKA_2; pfam07568 652103008767 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 652103008768 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 652103008769 ATP binding site [chemical binding]; other site 652103008770 Mg2+ binding site [ion binding]; other site 652103008771 G-X-G motif; other site 652103008772 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 652103008773 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 652103008774 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 652103008775 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 652103008776 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 652103008777 substrate binding pocket [chemical binding]; other site 652103008778 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 652103008779 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 652103008780 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 652103008781 conserved cys residue [active] 652103008782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103008783 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 652103008784 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 652103008785 conserved cys residue [active] 652103008786 NADH dehydrogenase; Validated; Region: PRK08183 652103008787 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 652103008788 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 652103008789 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103008790 catalytic residue [active] 652103008791 Porin subfamily; Region: Porin_2; pfam02530 652103008792 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 652103008793 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 652103008794 dimer interface [polypeptide binding]; other site 652103008795 conserved gate region; other site 652103008796 putative PBP binding loops; other site 652103008797 ABC-ATPase subunit interface; other site 652103008798 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 652103008799 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 652103008800 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 652103008801 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103008802 Walker A/P-loop; other site 652103008803 ATP binding site [chemical binding]; other site 652103008804 Q-loop/lid; other site 652103008805 ABC transporter signature motif; other site 652103008806 Walker B; other site 652103008807 D-loop; other site 652103008808 H-loop/switch region; other site 652103008809 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103008810 classical (c) SDRs; Region: SDR_c; cd05233 652103008811 NAD(P) binding site [chemical binding]; other site 652103008812 active site 652103008813 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103008814 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 652103008815 active site 652103008816 catalytic triad [active] 652103008817 dimer interface [polypeptide binding]; other site 652103008818 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R2; cd07579 652103008819 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103008820 putative active site [active] 652103008821 catalytic triad [active] 652103008822 putative dimer interface [polypeptide binding]; other site 652103008823 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 652103008824 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103008825 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103008826 Walker A/P-loop; other site 652103008827 ATP binding site [chemical binding]; other site 652103008828 Q-loop/lid; other site 652103008829 ABC transporter signature motif; other site 652103008830 Walker B; other site 652103008831 D-loop; other site 652103008832 H-loop/switch region; other site 652103008833 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 652103008834 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103008835 Walker A/P-loop; other site 652103008836 ATP binding site [chemical binding]; other site 652103008837 Q-loop/lid; other site 652103008838 ABC transporter signature motif; other site 652103008839 Walker B; other site 652103008840 D-loop; other site 652103008841 H-loop/switch region; other site 652103008842 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103008843 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 652103008844 TM-ABC transporter signature motif; other site 652103008845 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103008846 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 652103008847 TM-ABC transporter signature motif; other site 652103008848 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103008849 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_Amide_Urea_BP_like; cd06356 652103008850 putative ligand binding site [chemical binding]; other site 652103008851 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 652103008852 ANTAR domain; Region: ANTAR; cl04297 652103008853 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103008854 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 652103008855 ligand binding site [chemical binding]; other site 652103008856 regulator interaction site; other site 652103008857 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 652103008858 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 652103008859 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103008860 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 652103008861 T4-like phage nuclear disruption protein (Ndd); Region: Phage_T4_Ndd; pfam06591 652103008862 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 652103008863 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 652103008864 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 652103008865 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 652103008866 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 652103008867 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 652103008868 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 652103008869 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 652103008870 ATP cone domain; Region: ATP-cone; pfam03477 652103008871 Class III ribonucleotide reductase; Region: RNR_III; cd01675 652103008872 effector binding site; other site 652103008873 active site 652103008874 Zn binding site [ion binding]; other site 652103008875 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 652103008876 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 652103008877 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 652103008878 FeS/SAM binding site; other site 652103008879 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 652103008880 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 652103008881 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 652103008882 Walker A motif; other site 652103008883 ATP binding site [chemical binding]; other site 652103008884 Walker B motif; other site 652103008885 arginine finger; other site 652103008886 nitrogenase iron protein; Region: nifH; TIGR01287 652103008887 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 652103008888 Nucleotide-binding sites [chemical binding]; other site 652103008889 Walker A motif; other site 652103008890 Switch I region of nucleotide binding site; other site 652103008891 Fe4S4 binding sites [ion binding]; other site 652103008892 Switch II region of nucleotide binding site; other site 652103008893 nitrogenase iron-iron protein, alpha chain; Region: ANFD; TIGR01861 652103008894 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 652103008895 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; pfam03139 652103008896 Fe-only nitrogenase, beta subunit; Region: anfK_nitrog; TIGR02931 652103008897 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 652103008898 Fe-only nitrogenase accessory protein AnfO; Region: anfO_nitrog; TIGR02940 652103008899 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 652103008900 putative active site pocket [active] 652103008901 dimerization interface [polypeptide binding]; other site 652103008902 putative catalytic residue [active] 652103008903 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 652103008904 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 652103008905 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 652103008906 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 652103008907 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103008908 Protein export membrane protein; Region: SecD_SecF; cl14618 652103008909 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103008910 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103008911 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103008912 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103008913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103008914 active site 652103008915 phosphorylation site [posttranslational modification] 652103008916 intermolecular recognition site; other site 652103008917 dimerization interface [polypeptide binding]; other site 652103008918 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 652103008919 DNA binding site [nucleotide binding] 652103008920 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 652103008921 dimerization interface [polypeptide binding]; other site 652103008922 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 652103008923 dimer interface [polypeptide binding]; other site 652103008924 phosphorylation site [posttranslational modification] 652103008925 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 652103008926 ATP binding site [chemical binding]; other site 652103008927 Mg2+ binding site [ion binding]; other site 652103008928 G-X-G motif; other site 652103008929 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 652103008930 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 652103008931 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 652103008932 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 652103008933 Cytochrome c; Region: Cytochrom_C; cl11414 652103008934 Sulphur transport; Region: Sulf_transp; pfam04143 652103008935 Cytochrome c; Region: Cytochrom_C; pfam00034 652103008936 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 652103008937 Moco binding site; other site 652103008938 metal coordination site [ion binding]; other site 652103008939 dimerization interface [polypeptide binding]; other site 652103008940 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 652103008941 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 652103008942 active site 652103008943 metal binding site [ion binding]; metal-binding site 652103008944 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 652103008945 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 652103008946 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 652103008947 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 652103008948 Cytochrome c [Energy production and conversion]; Region: COG3258 652103008949 Cytochrome c; Region: Cytochrom_C; pfam00034 652103008950 Domain of unknown function (DUF336); Region: DUF336; cl01249 652103008951 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 652103008952 catalytic residues [active] 652103008953 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 652103008954 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 652103008955 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 652103008956 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 652103008957 dimerization interface [polypeptide binding]; other site 652103008958 putative DNA binding site [nucleotide binding]; other site 652103008959 putative Zn2+ binding site [ion binding]; other site 652103008960 Sulphur transport; Region: Sulf_transp; pfam04143 652103008961 Sulphur transport; Region: Sulf_transp; pfam04143 652103008962 DsrE/DsrF-like family; Region: DrsE; pfam02635 652103008963 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 652103008964 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 652103008965 FAD binding pocket [chemical binding]; other site 652103008966 FAD binding motif [chemical binding]; other site 652103008967 phosphate binding motif [ion binding]; other site 652103008968 NAD binding pocket [chemical binding]; other site 652103008969 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 652103008970 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 652103008971 Walker A/P-loop; other site 652103008972 ATP binding site [chemical binding]; other site 652103008973 Q-loop/lid; other site 652103008974 ABC transporter signature motif; other site 652103008975 Walker B; other site 652103008976 D-loop; other site 652103008977 H-loop/switch region; other site 652103008978 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 652103008979 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 652103008980 ABC-ATPase subunit interface; other site 652103008981 dimer interface [polypeptide binding]; other site 652103008982 putative PBP binding regions; other site 652103008983 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 652103008984 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 652103008985 intersubunit interface [polypeptide binding]; other site 652103008986 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 652103008987 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 652103008988 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103008989 N-terminal plug; other site 652103008990 ligand-binding site [chemical binding]; other site 652103008991 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103008992 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103008993 N-terminal plug; other site 652103008994 ligand-binding site [chemical binding]; other site 652103008995 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 652103008996 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103008997 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103008998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103008999 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103009000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009001 short chain dehydrogenase; Provisional; Region: PRK12747 652103009002 NAD(P) binding site [chemical binding]; other site 652103009003 active site 652103009004 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103009005 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103009006 acyl-activating enzyme (AAE) consensus motif; other site 652103009007 AMP binding site [chemical binding]; other site 652103009008 active site 652103009009 CoA binding site [chemical binding]; other site 652103009010 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 652103009011 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103009012 Walker A/P-loop; other site 652103009013 ATP binding site [chemical binding]; other site 652103009014 Q-loop/lid; other site 652103009015 ABC transporter signature motif; other site 652103009016 Walker B; other site 652103009017 D-loop; other site 652103009018 H-loop/switch region; other site 652103009019 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 652103009020 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103009021 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103009022 Walker A/P-loop; other site 652103009023 ATP binding site [chemical binding]; other site 652103009024 Q-loop/lid; other site 652103009025 ABC transporter signature motif; other site 652103009026 Walker B; other site 652103009027 D-loop; other site 652103009028 H-loop/switch region; other site 652103009029 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103009030 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 652103009031 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 652103009032 dimer interface [polypeptide binding]; other site 652103009033 conserved gate region; other site 652103009034 putative PBP binding loops; other site 652103009035 ABC-ATPase subunit interface; other site 652103009036 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103009037 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 652103009038 dimer interface [polypeptide binding]; other site 652103009039 conserved gate region; other site 652103009040 ABC-ATPase subunit interface; other site 652103009041 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 652103009042 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_13; cd08517 652103009043 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103009044 CoenzymeA binding site [chemical binding]; other site 652103009045 subunit interaction site [polypeptide binding]; other site 652103009046 PHB binding site; other site 652103009047 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 652103009048 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103009049 NAD(P) binding site [chemical binding]; other site 652103009050 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 652103009051 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 652103009052 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 652103009053 metal binding site [ion binding]; metal-binding site 652103009054 putative dimer interface [polypeptide binding]; other site 652103009055 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 652103009056 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 652103009057 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103009058 catalytic residue [active] 652103009059 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 652103009060 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 652103009061 putative DNA binding site [nucleotide binding]; other site 652103009062 putative Zn2+ binding site [ion binding]; other site 652103009063 AsnC family; Region: AsnC_trans_reg; pfam01037 652103009064 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 652103009065 dimerization interface [polypeptide binding]; other site 652103009066 putative DNA binding site [nucleotide binding]; other site 652103009067 putative Zn2+ binding site [ion binding]; other site 652103009068 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 652103009069 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103009070 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 652103009071 DNA binding residues [nucleotide binding] 652103009072 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 652103009073 IucA / IucC family; Region: IucA_IucC; pfam04183 652103009074 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 652103009075 IucA / IucC family; Region: IucA_IucC; pfam04183 652103009076 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 652103009077 acyl-CoA synthetase; Validated; Region: PRK08308 652103009078 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103009079 active site 652103009080 CoA binding site [chemical binding]; other site 652103009081 AMP binding site [chemical binding]; other site 652103009082 acyl carrier protein; Provisional; Region: PRK07639 652103009083 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 652103009084 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 652103009085 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 652103009086 putative ligand binding residues [chemical binding]; other site 652103009087 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 652103009088 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 652103009089 ABC-ATPase subunit interface; other site 652103009090 dimer interface [polypeptide binding]; other site 652103009091 putative PBP binding regions; other site 652103009092 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 652103009093 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 652103009094 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 652103009095 Walker A/P-loop; other site 652103009096 ATP binding site [chemical binding]; other site 652103009097 Q-loop/lid; other site 652103009098 ABC transporter signature motif; other site 652103009099 Walker B; other site 652103009100 D-loop; other site 652103009101 H-loop/switch region; other site 652103009102 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 652103009103 FecR protein; Region: FecR; pfam04773 652103009104 Secretin and TonB N terminus short domain; Region: STN; smart00965 652103009105 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 652103009106 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 652103009107 putative acetyltransferase YhhY; Provisional; Region: PRK10140 652103009108 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103009109 Coenzyme A binding pocket [chemical binding]; other site 652103009110 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103009111 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103009112 N-terminal plug; other site 652103009113 ligand-binding site [chemical binding]; other site 652103009114 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 652103009115 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103009116 Ligand Binding Site [chemical binding]; other site 652103009117 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103009118 Ligand Binding Site [chemical binding]; other site 652103009119 Citrate transporter; Region: CitMHS; pfam03600 652103009120 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 652103009121 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 652103009122 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 652103009123 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103009124 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 652103009125 Soluble P-type ATPase [General function prediction only]; Region: COG4087 652103009126 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 652103009127 Uncharacterized conserved protein [Function unknown]; Region: COG2928 652103009128 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 652103009129 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 652103009130 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103009131 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 652103009132 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103009133 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 652103009134 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103009135 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103009136 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103009137 Protein export membrane protein; Region: SecD_SecF; cl14618 652103009138 Protein export membrane protein; Region: SecD_SecF; cl14618 652103009139 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103009140 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103009141 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103009142 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 652103009143 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 652103009144 Trp docking motif [polypeptide binding]; other site 652103009145 putative active site [active] 652103009146 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 652103009147 metal binding site 2 [ion binding]; metal-binding site 652103009148 putative DNA binding helix; other site 652103009149 metal binding site 1 [ion binding]; metal-binding site 652103009150 dimer interface [polypeptide binding]; other site 652103009151 structural Zn2+ binding site [ion binding]; other site 652103009152 Heavy-metal-associated domain; Region: HMA; pfam00403 652103009153 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 652103009154 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103009155 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 652103009156 motif II; other site 652103009157 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 652103009158 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103009159 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103009160 CHASE3 domain; Region: CHASE3; pfam05227 652103009161 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 652103009162 dimer interface [polypeptide binding]; other site 652103009163 phosphorylation site [posttranslational modification] 652103009164 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 652103009165 ATP binding site [chemical binding]; other site 652103009166 Mg2+ binding site [ion binding]; other site 652103009167 G-X-G motif; other site 652103009168 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 652103009169 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 652103009170 cyclase homology domain; Region: CHD; cd07302 652103009171 nucleotidyl binding site; other site 652103009172 metal binding site [ion binding]; metal-binding site 652103009173 dimer interface [polypeptide binding]; other site 652103009174 FecR protein; Region: FecR; pfam04773 652103009175 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 652103009176 TPR motif; other site 652103009177 binding surface 652103009178 Tetratricopeptide repeat; Region: TPR_9; pfam13371 652103009179 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 652103009180 hydrophobic ligand binding site; other site 652103009181 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 652103009182 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 652103009183 G1 box; other site 652103009184 putative GEF interaction site [polypeptide binding]; other site 652103009185 GTP/Mg2+ binding site [chemical binding]; other site 652103009186 Switch I region; other site 652103009187 G2 box; other site 652103009188 G3 box; other site 652103009189 Switch II region; other site 652103009190 G4 box; other site 652103009191 G5 box; other site 652103009192 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 652103009193 multidrug efflux system protein; Provisional; Region: PRK11431 652103009194 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 652103009195 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 652103009196 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 652103009197 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 652103009198 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 652103009199 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103009200 TM-ABC transporter signature motif; other site 652103009201 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103009202 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 652103009203 TM-ABC transporter signature motif; other site 652103009204 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103009205 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103009206 Walker A/P-loop; other site 652103009207 ATP binding site [chemical binding]; other site 652103009208 Q-loop/lid; other site 652103009209 ABC transporter signature motif; other site 652103009210 Walker B; other site 652103009211 D-loop; other site 652103009212 H-loop/switch region; other site 652103009213 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103009214 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103009215 Walker A/P-loop; other site 652103009216 ATP binding site [chemical binding]; other site 652103009217 Q-loop/lid; other site 652103009218 ABC transporter signature motif; other site 652103009219 Walker B; other site 652103009220 D-loop; other site 652103009221 H-loop/switch region; other site 652103009222 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 652103009223 ArsC family; Region: ArsC; pfam03960 652103009224 putative catalytic residues [active] 652103009225 pyruvate kinase; Validated; Region: PRK08187 652103009226 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 652103009227 active site 652103009228 domain interfaces; other site 652103009229 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 652103009230 SnoaL-like domain; Region: SnoaL_2; pfam12680 652103009231 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 652103009232 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 652103009233 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 652103009234 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 652103009235 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 652103009236 AAA domain; Region: AAA_28; pfam13521 652103009237 Predicted ATPase [General function prediction only]; Region: COG3911 652103009238 Cupin domain; Region: Cupin_2; pfam07883 652103009239 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 652103009240 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 652103009241 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 652103009242 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103009243 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 652103009244 RES domain; Region: RES; smart00953 652103009245 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 652103009246 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103009247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103009248 Transposase domain (DUF772); Region: DUF772; pfam05598 652103009249 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 652103009250 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 652103009251 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103009252 DNA binding residues [nucleotide binding] 652103009253 dimerization interface [polypeptide binding]; other site 652103009254 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 652103009255 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 652103009256 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 652103009257 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 652103009258 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 652103009259 dimerization interface [polypeptide binding]; other site 652103009260 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103009261 dimer interface [polypeptide binding]; other site 652103009262 putative CheW interface [polypeptide binding]; other site 652103009263 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103009264 dimer interface [polypeptide binding]; other site 652103009265 putative CheW interface [polypeptide binding]; other site 652103009266 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 652103009267 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 652103009268 PAS fold; Region: PAS_3; pfam08447 652103009269 putative active site [active] 652103009270 heme pocket [chemical binding]; other site 652103009271 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 652103009272 Tar ligand binding domain homologue; Region: TarH; pfam02203 652103009273 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 652103009274 dimerization interface [polypeptide binding]; other site 652103009275 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103009276 dimer interface [polypeptide binding]; other site 652103009277 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103009278 putative CheW interface [polypeptide binding]; other site 652103009279 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 652103009280 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 652103009281 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 652103009282 VirB7 interaction site; other site 652103009283 conjugal transfer protein TrbF; Provisional; Region: PRK13872 652103009284 conjugal transfer protein TrbL; Provisional; Region: PRK13875 652103009285 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 652103009286 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 652103009287 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 652103009288 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 652103009289 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 652103009290 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 652103009291 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 652103009292 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103009293 Walker B; other site 652103009294 D-loop; other site 652103009295 H-loop/switch region; other site 652103009296 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 652103009297 TrbC/VIRB2 family; Region: TrbC; pfam04956 652103009298 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 652103009299 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 652103009300 Walker A motif; other site 652103009301 ATP binding site [chemical binding]; other site 652103009302 Walker B motif; other site 652103009303 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103009304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103009305 metal binding site [ion binding]; metal-binding site 652103009306 active site 652103009307 I-site; other site 652103009308 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 652103009309 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 652103009310 putative active site [active] 652103009311 heme pocket [chemical binding]; other site 652103009312 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 652103009313 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 652103009314 putative active site [active] 652103009315 heme pocket [chemical binding]; other site 652103009316 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 652103009317 putative active site [active] 652103009318 heme pocket [chemical binding]; other site 652103009319 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103009320 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103009321 dimer interface [polypeptide binding]; other site 652103009322 putative CheW interface [polypeptide binding]; other site 652103009323 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103009324 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103009325 active site 652103009326 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 652103009327 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 652103009328 Walker A/P-loop; other site 652103009329 ATP binding site [chemical binding]; other site 652103009330 Q-loop/lid; other site 652103009331 ABC transporter signature motif; other site 652103009332 Walker B; other site 652103009333 D-loop; other site 652103009334 H-loop/switch region; other site 652103009335 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 652103009336 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103009337 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 652103009338 TM-ABC transporter signature motif; other site 652103009339 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 652103009340 Strictosidine synthase; Region: Str_synth; pfam03088 652103009341 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 652103009342 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 652103009343 ligand binding site [chemical binding]; other site 652103009344 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103009345 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 652103009346 TM-ABC transporter signature motif; other site 652103009347 Transcriptional regulators [Transcription]; Region: GntR; COG1802 652103009348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103009349 DNA-binding site [nucleotide binding]; DNA binding site 652103009350 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 652103009351 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 652103009352 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 652103009353 Walker A motif; other site 652103009354 ATP binding site [chemical binding]; other site 652103009355 Walker B motif; other site 652103009356 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 652103009357 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 652103009358 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103009359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103009360 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103009361 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 652103009362 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 652103009363 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103009364 catalytic residue [active] 652103009365 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 652103009366 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 652103009367 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 652103009368 Replication initiator protein A; Region: RPA; pfam10134 652103009369 Helix-turn-helix domain; Region: HTH_17; pfam12728 652103009370 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 652103009371 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 652103009372 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 652103009373 non-specific DNA binding site [nucleotide binding]; other site 652103009374 salt bridge; other site 652103009375 sequence-specific DNA binding site [nucleotide binding]; other site 652103009376 Uncharacterized conserved protein [Function unknown]; Region: COG5489 652103009377 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 652103009378 Toprim domain; Region: Toprim_3; pfam13362 652103009379 Methyltransferase domain; Region: Methyltransf_26; pfam13659 652103009380 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 652103009381 Helicase_C-like; Region: Helicase_C_4; pfam13871 652103009382 ParB-like nuclease domain; Region: ParBc; pfam02195 652103009383 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 652103009384 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 652103009385 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 652103009386 integrase; Provisional; Region: PRK09692 652103009387 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 652103009388 active site 652103009389 Int/Topo IB signature motif; other site 652103009390 GMP synthase; Reviewed; Region: guaA; PRK00074 652103009391 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 652103009392 AMP/PPi binding site [chemical binding]; other site 652103009393 candidate oxyanion hole; other site 652103009394 catalytic triad [active] 652103009395 potential glutamine specificity residues [chemical binding]; other site 652103009396 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 652103009397 ATP Binding subdomain [chemical binding]; other site 652103009398 Ligand Binding sites [chemical binding]; other site 652103009399 Dimerization subdomain; other site 652103009400 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 652103009401 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 652103009402 Prostaglandin dehydrogenases; Region: PGDH; cd05288 652103009403 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 652103009404 NAD(P) binding site [chemical binding]; other site 652103009405 substrate binding site [chemical binding]; other site 652103009406 dimer interface [polypeptide binding]; other site 652103009407 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 652103009408 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 652103009409 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 652103009410 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 652103009411 active site 652103009412 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103009413 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103009414 putative substrate translocation pore; other site 652103009415 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 652103009416 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 652103009417 S-adenosylmethionine binding site [chemical binding]; other site 652103009418 exopolyphosphatase; Region: exo_poly_only; TIGR03706 652103009419 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 652103009420 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103009421 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 652103009422 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103009423 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103009424 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 652103009425 putative ligand binding site [chemical binding]; other site 652103009426 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 652103009427 active site 2 [active] 652103009428 active site 1 [active] 652103009429 hypothetical protein; Validated; Region: PRK00124 652103009430 ABC transporter ATPase component; Reviewed; Region: PRK11147 652103009431 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103009432 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103009433 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 652103009434 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 652103009435 dimer interface [polypeptide binding]; other site 652103009436 active site 652103009437 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103009438 substrate binding site [chemical binding]; other site 652103009439 catalytic residue [active] 652103009440 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 652103009441 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103009442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009443 NAD(P) binding site [chemical binding]; other site 652103009444 active site 652103009445 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 652103009446 putative active site [active] 652103009447 putative catalytic site [active] 652103009448 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103009449 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 652103009450 NAD(P) binding site [chemical binding]; other site 652103009451 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 652103009452 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 652103009453 putative catalytic residue [active] 652103009454 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 652103009455 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 652103009456 C-terminal domain interface [polypeptide binding]; other site 652103009457 GSH binding site (G-site) [chemical binding]; other site 652103009458 dimer interface [polypeptide binding]; other site 652103009459 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 652103009460 N-terminal domain interface [polypeptide binding]; other site 652103009461 putative dimer interface [polypeptide binding]; other site 652103009462 active site 652103009463 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 652103009464 substrate binding site [chemical binding]; other site 652103009465 methionine synthase; Provisional; Region: PRK01207 652103009466 THF binding site; other site 652103009467 zinc-binding site [ion binding]; other site 652103009468 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103009469 active site 652103009470 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 652103009471 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 652103009472 putative MPT binding site; other site 652103009473 Uncharacterized conserved protein [Function unknown]; Region: COG2308 652103009474 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 652103009475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 652103009476 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 652103009477 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 652103009478 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 652103009479 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 652103009480 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 652103009481 active site 652103009482 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 652103009483 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 652103009484 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 652103009485 classical (c) SDRs; Region: SDR_c; cd05233 652103009486 NAD(P) binding site [chemical binding]; other site 652103009487 active site 652103009488 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 652103009489 Cupin domain; Region: Cupin_2; pfam07883 652103009490 Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP; Region: RLP_RrRLP; cd08210 652103009491 dimer interface [polypeptide binding]; other site 652103009492 active site 652103009493 catalytic residue [active] 652103009494 metal binding site [ion binding]; metal-binding site 652103009495 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 652103009496 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 652103009497 Nucleoside recognition; Region: Gate; pfam07670 652103009498 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 652103009499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 652103009500 AAA domain; Region: AAA_33; pfam13671 652103009501 Usg-like family; Region: Usg; pfam06233 652103009502 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 652103009503 oligomerisation interface [polypeptide binding]; other site 652103009504 mobile loop; other site 652103009505 roof hairpin; other site 652103009506 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 652103009507 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 652103009508 ring oligomerisation interface [polypeptide binding]; other site 652103009509 ATP/Mg binding site [chemical binding]; other site 652103009510 stacking interactions; other site 652103009511 hinge regions; other site 652103009512 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 652103009513 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 652103009514 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 652103009515 non-specific DNA binding site [nucleotide binding]; other site 652103009516 salt bridge; other site 652103009517 sequence-specific DNA binding site [nucleotide binding]; other site 652103009518 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 652103009519 non-specific DNA binding site [nucleotide binding]; other site 652103009520 salt bridge; other site 652103009521 sequence-specific DNA binding site [nucleotide binding]; other site 652103009522 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 652103009523 hypothetical protein; Provisional; Region: PRK10396 652103009524 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 652103009525 SEC-C motif; Region: SEC-C; pfam02810 652103009526 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 652103009527 dimerization interface [polypeptide binding]; other site 652103009528 putative DNA binding site [nucleotide binding]; other site 652103009529 putative Zn2+ binding site [ion binding]; other site 652103009530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009531 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103009532 NAD(P) binding site [chemical binding]; other site 652103009533 active site 652103009534 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 652103009535 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 652103009536 dihydroxy-acid dehydratase; Validated; Region: PRK06131 652103009537 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 652103009538 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103009539 NAD binding site [chemical binding]; other site 652103009540 catalytic residues [active] 652103009541 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 652103009542 PAS fold; Region: PAS_7; pfam12860 652103009543 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103009544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103009545 metal binding site [ion binding]; metal-binding site 652103009546 active site 652103009547 I-site; other site 652103009548 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 652103009549 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 652103009550 EamA-like transporter family; Region: EamA; pfam00892 652103009551 EamA-like transporter family; Region: EamA; pfam00892 652103009552 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 652103009553 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 652103009554 active site 652103009555 catalytic tetrad [active] 652103009556 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 652103009557 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 652103009558 dimer interface [polypeptide binding]; other site 652103009559 active site 652103009560 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 652103009561 Beta-lactamase; Region: Beta-lactamase; pfam00144 652103009562 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 652103009563 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103009564 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103009565 acyl-activating enzyme (AAE) consensus motif; other site 652103009566 acyl-activating enzyme (AAE) consensus motif; other site 652103009567 active site 652103009568 AMP binding site [chemical binding]; other site 652103009569 CoA binding site [chemical binding]; other site 652103009570 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103009571 enoyl-CoA hydratase; Provisional; Region: PRK05995 652103009572 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 652103009573 substrate binding site [chemical binding]; other site 652103009574 oxyanion hole (OAH) forming residues; other site 652103009575 trimer interface [polypeptide binding]; other site 652103009576 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 652103009577 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103009578 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 652103009579 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 652103009580 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 652103009581 carboxyltransferase (CT) interaction site; other site 652103009582 biotinylation site [posttranslational modification]; other site 652103009583 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 652103009584 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 652103009585 acyl-CoA synthetase; Validated; Region: PRK08316 652103009586 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103009587 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103009588 acyl-activating enzyme (AAE) consensus motif; other site 652103009589 acyl-activating enzyme (AAE) consensus motif; other site 652103009590 putative AMP binding site [chemical binding]; other site 652103009591 putative active site [active] 652103009592 putative CoA binding site [chemical binding]; other site 652103009593 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 652103009594 Cupin domain; Region: Cupin_2; cl17218 652103009595 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103009596 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103009597 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 652103009598 putative C-terminal domain interface [polypeptide binding]; other site 652103009599 putative GSH binding site (G-site) [chemical binding]; other site 652103009600 putative dimer interface [polypeptide binding]; other site 652103009601 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103009602 N-terminal domain interface [polypeptide binding]; other site 652103009603 dimer interface [polypeptide binding]; other site 652103009604 substrate binding pocket (H-site) [chemical binding]; other site 652103009605 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103009606 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103009607 active site 652103009608 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103009609 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103009610 active site 652103009611 Cytochrome c; Region: Cytochrom_C; cl11414 652103009612 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103009613 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 652103009614 dimer interface [polypeptide binding]; other site 652103009615 phosphorylation site [posttranslational modification] 652103009616 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 652103009617 ATP binding site [chemical binding]; other site 652103009618 G-X-G motif; other site 652103009619 Response regulator receiver domain; Region: Response_reg; pfam00072 652103009620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103009621 active site 652103009622 phosphorylation site [posttranslational modification] 652103009623 intermolecular recognition site; other site 652103009624 dimerization interface [polypeptide binding]; other site 652103009625 Predicted periplasmic protein [Function unknown]; Region: COG3904 652103009626 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 652103009627 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 652103009628 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 652103009629 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 652103009630 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 652103009631 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 652103009632 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 652103009633 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 652103009634 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 652103009635 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103009636 N-terminal plug; other site 652103009637 ligand-binding site [chemical binding]; other site 652103009638 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 652103009639 NADH(P)-binding; Region: NAD_binding_10; pfam13460 652103009640 NAD(P) binding site [chemical binding]; other site 652103009641 putative active site [active] 652103009642 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 652103009643 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 652103009644 FeS/SAM binding site; other site 652103009645 Hemin uptake protein hemP; Region: hemP; pfam10636 652103009646 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 652103009647 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 652103009648 putative hemin binding site; other site 652103009649 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 652103009650 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 652103009651 dimer interface [polypeptide binding]; other site 652103009652 putative PBP binding regions; other site 652103009653 ABC-ATPase subunit interface; other site 652103009654 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 652103009655 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 652103009656 Walker A/P-loop; other site 652103009657 ATP binding site [chemical binding]; other site 652103009658 Q-loop/lid; other site 652103009659 ABC transporter signature motif; other site 652103009660 Walker B; other site 652103009661 D-loop; other site 652103009662 H-loop/switch region; other site 652103009663 flavodoxin FldA; Validated; Region: PRK09267 652103009664 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 652103009665 cyanate hydratase; Validated; Region: PRK02866 652103009666 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 652103009667 oligomer interface [polypeptide binding]; other site 652103009668 active site 652103009669 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103009670 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103009671 Walker A/P-loop; other site 652103009672 ATP binding site [chemical binding]; other site 652103009673 Q-loop/lid; other site 652103009674 ABC transporter signature motif; other site 652103009675 Walker B; other site 652103009676 D-loop; other site 652103009677 H-loop/switch region; other site 652103009678 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103009679 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 652103009680 dimer interface [polypeptide binding]; other site 652103009681 conserved gate region; other site 652103009682 putative PBP binding loops; other site 652103009683 ABC-ATPase subunit interface; other site 652103009684 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103009685 NMT1-like family; Region: NMT1_2; pfam13379 652103009686 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 652103009687 PAS domain; Region: PAS_9; pfam13426 652103009688 putative active site [active] 652103009689 heme pocket [chemical binding]; other site 652103009690 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 652103009691 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 652103009692 Walker A motif; other site 652103009693 ATP binding site [chemical binding]; other site 652103009694 Walker B motif; other site 652103009695 arginine finger; other site 652103009696 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 652103009697 homodimer interface [polypeptide binding]; other site 652103009698 active site 652103009699 SAM binding site [chemical binding]; other site 652103009700 cobyric acid synthase; Provisional; Region: PRK00784 652103009701 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 652103009702 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 652103009703 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 652103009704 catalytic triad [active] 652103009705 cobalamin synthase; Reviewed; Region: cobS; PRK00235 652103009706 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 652103009707 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 652103009708 putative dimer interface [polypeptide binding]; other site 652103009709 active site pocket [active] 652103009710 putative cataytic base [active] 652103009711 precorrin 3B synthase CobZ; Region: CobZ_N-term; TIGR02485 652103009712 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 652103009713 CitB domain protein; Region: CitB; TIGR02484 652103009714 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 652103009715 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 652103009716 Precorrin-8X methylmutase; Region: CbiC; pfam02570 652103009717 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 652103009718 active site 652103009719 SAM binding site [chemical binding]; other site 652103009720 homodimer interface [polypeptide binding]; other site 652103009721 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 652103009722 active site 652103009723 SAM binding site [chemical binding]; other site 652103009724 homodimer interface [polypeptide binding]; other site 652103009725 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 652103009726 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 652103009727 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 652103009728 active site 652103009729 putative homodimer interface [polypeptide binding]; other site 652103009730 SAM binding site [chemical binding]; other site 652103009731 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 652103009732 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 652103009733 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 652103009734 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 652103009735 active site 652103009736 SAM binding site [chemical binding]; other site 652103009737 homodimer interface [polypeptide binding]; other site 652103009738 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 652103009739 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 652103009740 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 652103009741 active site 652103009742 SAM binding site [chemical binding]; other site 652103009743 homodimer interface [polypeptide binding]; other site 652103009744 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 652103009745 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 652103009746 intersubunit interface [polypeptide binding]; other site 652103009747 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 652103009748 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 652103009749 Predicted integral membrane protein [Function unknown]; Region: COG5615 652103009750 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 652103009751 ApbE family; Region: ApbE; pfam02424 652103009752 NosL; Region: NosL; pfam05573 652103009753 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 652103009754 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 652103009755 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 652103009756 Walker A/P-loop; other site 652103009757 ATP binding site [chemical binding]; other site 652103009758 Q-loop/lid; other site 652103009759 ABC transporter signature motif; other site 652103009760 Walker B; other site 652103009761 D-loop; other site 652103009762 H-loop/switch region; other site 652103009763 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 652103009764 nitrous-oxide reductase; Validated; Region: PRK02888 652103009765 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 652103009766 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 652103009767 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 652103009768 4Fe-4S binding domain; Region: Fer4_5; pfam12801 652103009769 4Fe-4S binding domain; Region: Fer4_5; pfam12801 652103009770 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103009771 diiron binding motif [ion binding]; other site 652103009772 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 652103009773 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_9; cd04666 652103009774 nudix motif; other site 652103009775 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 652103009776 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 652103009777 E3 interaction surface; other site 652103009778 lipoyl attachment site [posttranslational modification]; other site 652103009779 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103009780 Outer membrane efflux protein; Region: OEP; pfam02321 652103009781 Outer membrane efflux protein; Region: OEP; pfam02321 652103009782 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 652103009783 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103009784 Coenzyme A binding pocket [chemical binding]; other site 652103009785 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 652103009786 ornithine decarboxylase; Provisional; Region: PRK13578 652103009787 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 652103009788 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103009789 catalytic residue [active] 652103009790 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 652103009791 T5orf172 domain; Region: T5orf172; pfam10544 652103009792 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 652103009793 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 652103009794 ATP binding site [chemical binding]; other site 652103009795 putative Mg++ binding site [ion binding]; other site 652103009796 Pseudomurein-binding repeat; Region: PMBR; pfam09373 652103009797 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 652103009798 DctM-like transporters; Region: DctM; pfam06808 652103009799 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 652103009800 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 652103009801 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103009802 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 652103009803 2-isopropylmalate synthase; Validated; Region: PRK00915 652103009804 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 652103009805 active site 652103009806 catalytic residues [active] 652103009807 metal binding site [ion binding]; metal-binding site 652103009808 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 652103009809 biotin synthase; Region: bioB; TIGR00433 652103009810 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 652103009811 FeS/SAM binding site; other site 652103009812 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 652103009813 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 652103009814 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 652103009815 NMT1/THI5 like; Region: NMT1; pfam09084 652103009816 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 652103009817 substrate binding pocket [chemical binding]; other site 652103009818 membrane-bound complex binding site; other site 652103009819 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103009820 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 652103009821 dimer interface [polypeptide binding]; other site 652103009822 conserved gate region; other site 652103009823 ABC-ATPase subunit interface; other site 652103009824 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103009825 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103009826 Walker A/P-loop; other site 652103009827 ATP binding site [chemical binding]; other site 652103009828 Q-loop/lid; other site 652103009829 ABC transporter signature motif; other site 652103009830 Walker B; other site 652103009831 D-loop; other site 652103009832 H-loop/switch region; other site 652103009833 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 652103009834 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103009835 Walker A/P-loop; other site 652103009836 ATP binding site [chemical binding]; other site 652103009837 Q-loop/lid; other site 652103009838 ABC transporter signature motif; other site 652103009839 Walker B; other site 652103009840 D-loop; other site 652103009841 H-loop/switch region; other site 652103009842 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 652103009843 dimer interface [polypeptide binding]; other site 652103009844 conserved gate region; other site 652103009845 ABC-ATPase subunit interface; other site 652103009846 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 652103009847 short chain dehydrogenase; Validated; Region: PRK06182 652103009848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009849 NAD(P) binding site [chemical binding]; other site 652103009850 active site 652103009851 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_8; cd06343 652103009852 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103009853 putative ligand binding site [chemical binding]; other site 652103009854 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103009855 Transcriptional regulators [Transcription]; Region: FadR; COG2186 652103009856 DNA-binding site [nucleotide binding]; DNA binding site 652103009857 FCD domain; Region: FCD; pfam07729 652103009858 ketol-acid reductoisomerase; Provisional; Region: PRK05479 652103009859 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 652103009860 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 652103009861 LysE type translocator; Region: LysE; cl00565 652103009862 EamA-like transporter family; Region: EamA; cl17759 652103009863 EamA-like transporter family; Region: EamA; pfam00892 652103009864 Protein required for attachment to host cells; Region: Host_attach; pfam10116 652103009865 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 652103009866 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 652103009867 putative valine binding site [chemical binding]; other site 652103009868 dimer interface [polypeptide binding]; other site 652103009869 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 652103009870 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 652103009871 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103009872 PYR/PP interface [polypeptide binding]; other site 652103009873 dimer interface [polypeptide binding]; other site 652103009874 TPP binding site [chemical binding]; other site 652103009875 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 652103009876 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 652103009877 TPP-binding site [chemical binding]; other site 652103009878 dimer interface [polypeptide binding]; other site 652103009879 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 652103009880 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 652103009881 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 652103009882 Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like; Region: HAD-SF-IB; TIGR01488 652103009883 HerA helicase [Replication, recombination, and repair]; Region: COG0433 652103009884 Domain of unknown function DUF87; Region: DUF87; pfam01935 652103009885 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 652103009886 PA26 p53-induced protein (sestrin); Region: PA26; pfam04636 652103009887 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103009888 MgtC family; Region: MgtC; pfam02308 652103009889 acyl carrier protein; Provisional; Region: PRK06508 652103009890 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 652103009891 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 652103009892 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 652103009893 active site 652103009894 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 652103009895 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 652103009896 dimer interface [polypeptide binding]; other site 652103009897 active site 652103009898 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 652103009899 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103009900 NAD(P) binding site [chemical binding]; other site 652103009901 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 652103009902 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 652103009903 putative acyl-acceptor binding pocket; other site 652103009904 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 652103009905 B12 binding site [chemical binding]; other site 652103009906 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 652103009907 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 652103009908 FeS/SAM binding site; other site 652103009909 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 652103009910 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 652103009911 hypothetical protein; Provisional; Region: PRK08912 652103009912 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 652103009913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103009914 homodimer interface [polypeptide binding]; other site 652103009915 catalytic residue [active] 652103009916 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 652103009917 active site residue [active] 652103009918 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 652103009919 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 652103009920 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103009921 ligand binding site [chemical binding]; other site 652103009922 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 652103009923 flagellar motor protein MotP; Reviewed; Region: PRK06743 652103009924 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 652103009925 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 652103009926 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 652103009927 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 652103009928 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 652103009929 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 652103009930 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 652103009931 Walker A/P-loop; other site 652103009932 ATP binding site [chemical binding]; other site 652103009933 Q-loop/lid; other site 652103009934 ABC transporter signature motif; other site 652103009935 Walker B; other site 652103009936 D-loop; other site 652103009937 H-loop/switch region; other site 652103009938 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 652103009939 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 652103009940 Cytochrome c; Region: Cytochrom_C; pfam00034 652103009941 Cytochrome c [Energy production and conversion]; Region: COG3258 652103009942 Cytochrome c; Region: Cytochrom_C; pfam00034 652103009943 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 652103009944 FAD binding domain; Region: FAD_binding_4; pfam01565 652103009945 hypothetical protein; Provisional; Region: PRK12474 652103009946 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103009947 PYR/PP interface [polypeptide binding]; other site 652103009948 dimer interface [polypeptide binding]; other site 652103009949 TPP binding site [chemical binding]; other site 652103009950 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 652103009951 TPP-binding site [chemical binding]; other site 652103009952 dimer interface [polypeptide binding]; other site 652103009953 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 652103009954 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 652103009955 active site 652103009956 catalytic residues [active] 652103009957 metal binding site [ion binding]; metal-binding site 652103009958 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 652103009959 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 652103009960 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103009961 Coenzyme A binding pocket [chemical binding]; other site 652103009962 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 652103009963 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 652103009964 active site 652103009965 HIGH motif; other site 652103009966 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 652103009967 KMSKS motif; other site 652103009968 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 652103009969 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 652103009970 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 652103009971 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103009972 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 652103009973 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103009974 DNA binding residues [nucleotide binding] 652103009975 dimerization interface [polypeptide binding]; other site 652103009976 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 652103009977 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 652103009978 oligomeric interface; other site 652103009979 putative active site [active] 652103009980 homodimer interface [polypeptide binding]; other site 652103009981 NAD synthetase; Provisional; Region: PRK13981 652103009982 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 652103009983 multimer interface [polypeptide binding]; other site 652103009984 active site 652103009985 catalytic triad [active] 652103009986 protein interface 1 [polypeptide binding]; other site 652103009987 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 652103009988 homodimer interface [polypeptide binding]; other site 652103009989 NAD binding pocket [chemical binding]; other site 652103009990 ATP binding pocket [chemical binding]; other site 652103009991 Mg binding site [ion binding]; other site 652103009992 active-site loop [active] 652103009993 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 652103009994 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 652103009995 glutathione reductase; Validated; Region: PRK06116 652103009996 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 652103009997 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103009998 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 652103009999 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 652103010000 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 652103010001 tetramer (dimer of dimers) interface [polypeptide binding]; other site 652103010002 active site 652103010003 dimer interface [polypeptide binding]; other site 652103010004 phosphoglycolate phosphatase; Provisional; Region: PRK13222 652103010005 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 652103010006 motif II; other site 652103010007 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 652103010008 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 652103010009 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 652103010010 FeS/SAM binding site; other site 652103010011 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 652103010012 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 652103010013 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 652103010014 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 652103010015 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103010016 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103010017 Domain of unknown function DUF59; Region: DUF59; pfam01883 652103010018 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 652103010019 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 652103010020 Walker A motif; other site 652103010021 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 652103010022 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 652103010023 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 652103010024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103010025 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 652103010026 dimer interface [polypeptide binding]; other site 652103010027 phosphorylation site [posttranslational modification] 652103010028 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 652103010029 ATP binding site [chemical binding]; other site 652103010030 Mg2+ binding site [ion binding]; other site 652103010031 G-X-G motif; other site 652103010032 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 652103010033 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 652103010034 catalytic motif [active] 652103010035 Catalytic residue [active] 652103010036 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 652103010037 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 652103010038 FMN binding site [chemical binding]; other site 652103010039 active site 652103010040 catalytic residues [active] 652103010041 substrate binding site [chemical binding]; other site 652103010042 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103010043 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103010044 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103010045 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 652103010046 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103010047 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103010048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103010049 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 652103010050 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 652103010051 dimerization interface [polypeptide binding]; other site 652103010052 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 652103010053 cyclase homology domain; Region: CHD; cd07302 652103010054 nucleotidyl binding site; other site 652103010055 metal binding site [ion binding]; metal-binding site 652103010056 dimer interface [polypeptide binding]; other site 652103010057 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 652103010058 nucleophile elbow; other site 652103010059 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103010060 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103010061 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103010062 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103010063 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103010064 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103010065 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103010066 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103010067 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 652103010068 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 652103010069 HerA helicase [Replication, recombination, and repair]; Region: COG0433 652103010070 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 652103010071 Walker A motif; other site 652103010072 ATP binding site [chemical binding]; other site 652103010073 Walker B motif; other site 652103010074 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 652103010075 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 652103010076 substrate binding site [chemical binding]; other site 652103010077 catalytic Zn binding site [ion binding]; other site 652103010078 NAD binding site [chemical binding]; other site 652103010079 structural Zn binding site [ion binding]; other site 652103010080 dimer interface [polypeptide binding]; other site 652103010081 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 652103010082 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 652103010083 FeS/SAM binding site; other site 652103010084 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 652103010085 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 652103010086 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 652103010087 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 652103010088 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 652103010089 PqqA family; Region: PqqA; cl15372 652103010090 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 652103010091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103010092 DNA-binding site [nucleotide binding]; DNA binding site 652103010093 FCD domain; Region: FCD; pfam07729 652103010094 formyl-coenzyme A transferase; Provisional; Region: PRK05398 652103010095 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103010096 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 652103010097 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 652103010098 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 652103010099 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 652103010100 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 652103010101 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 652103010102 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 652103010103 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 652103010104 FMN binding site [chemical binding]; other site 652103010105 substrate binding site [chemical binding]; other site 652103010106 putative catalytic residue [active] 652103010107 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 652103010108 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 652103010109 NAD(P) binding site [chemical binding]; other site 652103010110 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 652103010111 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 652103010112 Cation efflux family; Region: Cation_efflux; cl00316 652103010113 Cation efflux family; Region: Cation_efflux; cl00316 652103010114 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 652103010115 PAS fold; Region: PAS_3; pfam08447 652103010116 putative active site [active] 652103010117 heme pocket [chemical binding]; other site 652103010118 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 652103010119 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 652103010120 dimer interface [polypeptide binding]; other site 652103010121 phosphorylation site [posttranslational modification] 652103010122 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 652103010123 ATP binding site [chemical binding]; other site 652103010124 Mg2+ binding site [ion binding]; other site 652103010125 G-X-G motif; other site 652103010126 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 652103010127 catalytic triad [active] 652103010128 putative active site [active] 652103010129 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 652103010130 Autotransporter beta-domain; Region: Autotransporter; smart00869 652103010131 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103010132 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103010133 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 652103010134 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 652103010135 metal binding triad; other site 652103010136 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 652103010137 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 652103010138 metal binding triad; other site 652103010139 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 652103010140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103010141 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 652103010142 dimerization interface [polypeptide binding]; other site 652103010143 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 652103010144 dimer interface [polypeptide binding]; other site 652103010145 phosphorylation site [posttranslational modification] 652103010146 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 652103010147 ATP binding site [chemical binding]; other site 652103010148 Mg2+ binding site [ion binding]; other site 652103010149 G-X-G motif; other site 652103010150 PAS fold; Region: PAS_3; pfam08447 652103010151 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 652103010152 putative active site [active] 652103010153 heme pocket [chemical binding]; other site 652103010154 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103010155 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103010156 dimer interface [polypeptide binding]; other site 652103010157 putative CheW interface [polypeptide binding]; other site 652103010158 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103010159 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010160 active site 652103010161 phosphorylation site [posttranslational modification] 652103010162 intermolecular recognition site; other site 652103010163 dimerization interface [polypeptide binding]; other site 652103010164 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 652103010165 DNA binding site [nucleotide binding] 652103010166 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 652103010167 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 652103010168 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103010169 protein binding site [polypeptide binding]; other site 652103010170 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103010171 protein binding site [polypeptide binding]; other site 652103010172 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 652103010173 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 652103010174 catalytic loop [active] 652103010175 iron binding site [ion binding]; other site 652103010176 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103010177 diiron binding motif [ion binding]; other site 652103010178 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103010179 diiron binding motif [ion binding]; other site 652103010180 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 652103010181 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 652103010182 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 652103010183 formamidase; Provisional; Region: amiF; PRK13287 652103010184 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 652103010185 multimer interface [polypeptide binding]; other site 652103010186 active site 652103010187 catalytic triad [active] 652103010188 dimer interface [polypeptide binding]; other site 652103010189 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103010190 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103010191 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 652103010192 FtsX-like permease family; Region: FtsX; pfam02687 652103010193 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 652103010194 FtsX-like permease family; Region: FtsX; pfam02687 652103010195 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103010196 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 652103010197 Walker A/P-loop; other site 652103010198 ATP binding site [chemical binding]; other site 652103010199 Q-loop/lid; other site 652103010200 ABC transporter signature motif; other site 652103010201 Walker B; other site 652103010202 D-loop; other site 652103010203 H-loop/switch region; other site 652103010204 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 652103010205 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 652103010206 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 652103010207 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 652103010208 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 652103010209 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 652103010210 binding surface 652103010211 TPR motif; other site 652103010212 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 652103010213 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103010214 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 652103010215 ATP binding site [chemical binding]; other site 652103010216 Mg2+ binding site [ion binding]; other site 652103010217 G-X-G motif; other site 652103010218 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103010219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010220 active site 652103010221 phosphorylation site [posttranslational modification] 652103010222 intermolecular recognition site; other site 652103010223 dimerization interface [polypeptide binding]; other site 652103010224 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 652103010225 DNA binding site [nucleotide binding] 652103010226 Predicted chitinase [General function prediction only]; Region: COG3179 652103010227 catalytic residue [active] 652103010228 Radical SAM superfamily; Region: Radical_SAM; pfam04055 652103010229 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 652103010230 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 652103010231 Putative phage tail protein; Region: Phage-tail_3; pfam13550 652103010232 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 652103010233 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103010234 MarR family; Region: MarR_2; pfam12802 652103010235 Uncharacterized conserved protein [Function unknown]; Region: COG3791 652103010236 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 652103010237 NlpC/P60 family; Region: NLPC_P60; cl17555 652103010238 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 652103010239 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 652103010240 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 652103010241 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010242 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103010243 active site 652103010244 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 652103010245 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 652103010246 dimer interface [polypeptide binding]; other site 652103010247 active site 652103010248 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 652103010249 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 652103010250 NAD binding site [chemical binding]; other site 652103010251 homodimer interface [polypeptide binding]; other site 652103010252 homotetramer interface [polypeptide binding]; other site 652103010253 active site 652103010254 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 652103010255 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 652103010256 active site 652103010257 acyl-activating enzyme (AAE) consensus motif; other site 652103010258 putative CoA binding site [chemical binding]; other site 652103010259 AMP binding site [chemical binding]; other site 652103010260 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 652103010261 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103010262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103010263 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 652103010264 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103010265 DNA binding residues [nucleotide binding] 652103010266 dimerization interface [polypeptide binding]; other site 652103010267 Flagellar protein FlbT; Region: FlbT; cl11455 652103010268 flagellin; Provisional; Region: PRK14708 652103010269 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103010270 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103010271 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103010272 TIGR02217 family protein; Region: chp_TIGR02217 652103010273 Phage-related minor tail protein [Function unknown]; Region: COG5281 652103010274 phage conserved hypothetical protein; Region: phage_TIGR02216 652103010275 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 652103010276 Phage major tail protein 2; Region: Phage_tail_2; cl11463 652103010277 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 652103010278 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 652103010279 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 652103010280 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 652103010281 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 652103010282 oligomerization interface [polypeptide binding]; other site 652103010283 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 652103010284 active site 652103010285 substrate binding sites [chemical binding]; other site 652103010286 Uncharacterized conserved protein [Function unknown]; Region: COG5323 652103010287 Terminase-like family; Region: Terminase_6; pfam03237 652103010288 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 652103010289 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 652103010290 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 652103010291 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 652103010292 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 652103010293 cofactor binding site; other site 652103010294 DNA binding site [nucleotide binding] 652103010295 substrate interaction site [chemical binding]; other site 652103010296 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 652103010297 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 652103010298 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 652103010299 additional DNA contacts [nucleotide binding]; other site 652103010300 mismatch recognition site; other site 652103010301 active site 652103010302 zinc binding site [ion binding]; other site 652103010303 DNA intercalation site [nucleotide binding]; other site 652103010304 Domain of unknown function (DUF2019); Region: DUF2019; pfam09450 652103010305 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 652103010306 Phage capsid family; Region: Phage_capsid; pfam05065 652103010307 Phage-related protein [Function unknown]; Region: COG4695 652103010308 Phage portal protein; Region: Phage_portal; pfam04860 652103010309 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 652103010310 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 652103010311 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 652103010312 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 652103010313 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103010314 putative substrate translocation pore; other site 652103010315 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 652103010316 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 652103010317 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 652103010318 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 652103010319 Protein of unknown function (DUF497); Region: DUF497; cl01108 652103010320 Beta-lactamase; Region: Beta-lactamase; pfam00144 652103010321 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 652103010322 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 652103010323 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 652103010324 active site 652103010325 Patatin-like phospholipase; Region: Patatin; pfam01734 652103010326 active site 652103010327 nucleophile elbow; other site 652103010328 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 652103010329 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103010330 N-terminal plug; other site 652103010331 ligand-binding site [chemical binding]; other site 652103010332 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103010333 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 652103010334 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 652103010335 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 652103010336 Winged helix-turn helix; Region: HTH_29; pfam13551 652103010337 DNA-binding interface [nucleotide binding]; DNA binding site 652103010338 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103010339 Helix-turn-helix domain; Region: HTH_38; pfam13936 652103010340 Integrase core domain; Region: rve; pfam00665 652103010341 Integrase core domain; Region: rve_3; pfam13683 652103010342 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010343 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 652103010344 putative ligand binding site [chemical binding]; other site 652103010345 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 652103010346 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 652103010347 catalytic loop [active] 652103010348 iron binding site [ion binding]; other site 652103010349 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 652103010350 Cytochrome P450; Region: p450; cl12078 652103010351 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103010352 MarR family; Region: MarR_2; pfam12802 652103010353 hypothetical protein; Provisional; Region: PRK10621 652103010354 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 652103010355 hypothetical protein; Provisional; Region: PRK05170 652103010356 Transglycosylase; Region: Transgly; pfam00912 652103010357 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 652103010358 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 652103010359 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 652103010360 Predicted integral membrane protein [Function unknown]; Region: COG5436 652103010361 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 652103010362 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 652103010363 NodB motif; other site 652103010364 active site 652103010365 catalytic site [active] 652103010366 metal binding site [ion binding]; metal-binding site 652103010367 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 652103010368 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 652103010369 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 652103010370 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 652103010371 putative active site [active] 652103010372 heme pocket [chemical binding]; other site 652103010373 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 652103010374 dimer interface [polypeptide binding]; other site 652103010375 phosphorylation site [posttranslational modification] 652103010376 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 652103010377 ATP binding site [chemical binding]; other site 652103010378 Mg2+ binding site [ion binding]; other site 652103010379 G-X-G motif; other site 652103010380 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 652103010381 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103010382 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103010383 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103010384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010385 NAD(P) binding site [chemical binding]; other site 652103010386 active site 652103010387 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 652103010388 aldolase II superfamily protein; Provisional; Region: PRK07044 652103010389 intersubunit interface [polypeptide binding]; other site 652103010390 active site 652103010391 Zn2+ binding site [ion binding]; other site 652103010392 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103010393 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103010394 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103010395 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 652103010396 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103010397 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 652103010398 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 652103010399 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 652103010400 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103010401 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103010402 N-terminal plug; other site 652103010403 ligand-binding site [chemical binding]; other site 652103010404 hypothetical protein; Validated; Region: PRK09104 652103010405 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 652103010406 metal binding site [ion binding]; metal-binding site 652103010407 putative dimer interface [polypeptide binding]; other site 652103010408 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 652103010409 Zonular occludens toxin (Zot); Region: Zot; cl17485 652103010410 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 652103010411 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 652103010412 dihydropteroate synthase; Region: DHPS; TIGR01496 652103010413 substrate binding pocket [chemical binding]; other site 652103010414 dimer interface [polypeptide binding]; other site 652103010415 inhibitor binding site; inhibition site 652103010416 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 652103010417 homooctamer interface [polypeptide binding]; other site 652103010418 active site 652103010419 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 652103010420 catalytic center binding site [active] 652103010421 ATP binding site [chemical binding]; other site 652103010422 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 652103010423 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 652103010424 heterodimer interface [polypeptide binding]; other site 652103010425 substrate interaction site [chemical binding]; other site 652103010426 Uncharacterized conserved protein [Function unknown]; Region: COG3791 652103010427 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 652103010428 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 652103010429 active site 652103010430 substrate binding site [chemical binding]; other site 652103010431 coenzyme B12 binding site [chemical binding]; other site 652103010432 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 652103010433 B12 binding site [chemical binding]; other site 652103010434 cobalt ligand [ion binding]; other site 652103010435 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 652103010436 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 652103010437 putative active site [active] 652103010438 homotetrameric interface [polypeptide binding]; other site 652103010439 metal binding site [ion binding]; metal-binding site 652103010440 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 652103010441 active site 652103010442 NTP binding site [chemical binding]; other site 652103010443 metal binding triad [ion binding]; metal-binding site 652103010444 Protein of unknown function DUF86; Region: DUF86; cl01031 652103010445 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 652103010446 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 652103010447 membrane ATPase/protein kinase; Provisional; Region: PRK09435 652103010448 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 652103010449 Walker A; other site 652103010450 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; cl00237 652103010451 putative substrate binding pocket [chemical binding]; other site 652103010452 AC domain interface; other site 652103010453 catalytic triad [active] 652103010454 AB domain interface; other site 652103010455 interchain disulfide; other site 652103010456 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 652103010457 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 652103010458 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 652103010459 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 652103010460 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 652103010461 HAMP domain; Region: HAMP; pfam00672 652103010462 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103010463 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103010464 dimer interface [polypeptide binding]; other site 652103010465 putative CheW interface [polypeptide binding]; other site 652103010466 TIGR03809 family protein; Region: TIGR03809 652103010467 RNA polymerase sigma factor; Provisional; Region: PRK12515 652103010468 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103010469 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 652103010470 DNA binding residues [nucleotide binding] 652103010471 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103010472 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010473 metal binding site [ion binding]; metal-binding site 652103010474 active site 652103010475 I-site; other site 652103010476 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 652103010477 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 652103010478 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103010479 N-terminal plug; other site 652103010480 ligand-binding site [chemical binding]; other site 652103010481 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 652103010482 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103010483 N-terminal plug; other site 652103010484 ligand-binding site [chemical binding]; other site 652103010485 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 652103010486 RNA polymerase sigma factor; Provisional; Region: PRK12512 652103010487 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103010488 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 652103010489 DNA binding residues [nucleotide binding] 652103010490 enoyl-CoA hydratase; Provisional; Region: PRK05862 652103010491 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 652103010492 substrate binding site [chemical binding]; other site 652103010493 oxyanion hole (OAH) forming residues; other site 652103010494 trimer interface [polypeptide binding]; other site 652103010495 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 652103010496 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 652103010497 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 652103010498 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 652103010499 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103010500 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103010501 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103010502 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103010503 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 652103010504 dimer interface [polypeptide binding]; other site 652103010505 phosphorylation site [posttranslational modification] 652103010506 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 652103010507 ATP binding site [chemical binding]; other site 652103010508 Mg2+ binding site [ion binding]; other site 652103010509 G-X-G motif; other site 652103010510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103010511 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010512 active site 652103010513 phosphorylation site [posttranslational modification] 652103010514 intermolecular recognition site; other site 652103010515 dimerization interface [polypeptide binding]; other site 652103010516 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 652103010517 DNA binding site [nucleotide binding] 652103010518 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103010519 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 652103010520 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 652103010521 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103010522 putative active site [active] 652103010523 putative metal binding site [ion binding]; other site 652103010524 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 652103010525 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 652103010526 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 652103010527 S-adenosylmethionine binding site [chemical binding]; other site 652103010528 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 652103010529 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 652103010530 active site 652103010531 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 652103010532 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 652103010533 generic binding surface I; other site 652103010534 generic binding surface II; other site 652103010535 DNA Polymerase Y-family; Region: PolY_like; cd03468 652103010536 active site 652103010537 DNA binding site [nucleotide binding] 652103010538 Uncharacterized conserved protein [Function unknown]; Region: COG4544 652103010539 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 652103010540 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 652103010541 FeS/SAM binding site; other site 652103010542 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 652103010543 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 652103010544 Fe-S cluster binding site [ion binding]; other site 652103010545 active site 652103010546 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_8; cd06343 652103010547 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010548 putative ligand binding site [chemical binding]; other site 652103010549 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 652103010550 Winged helix-turn helix; Region: HTH_29; pfam13551 652103010551 DNA-binding interface [nucleotide binding]; DNA binding site 652103010552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103010553 Helix-turn-helix domain; Region: HTH_38; pfam13936 652103010554 Integrase core domain; Region: rve; pfam00665 652103010555 Integrase core domain; Region: rve_3; pfam13683 652103010556 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 652103010557 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 652103010558 MOFRL family; Region: MOFRL; pfam05161 652103010559 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 652103010560 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 652103010561 cyclase homology domain; Region: CHD; cd07302 652103010562 nucleotidyl binding site; other site 652103010563 metal binding site [ion binding]; metal-binding site 652103010564 dimer interface [polypeptide binding]; other site 652103010565 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 652103010566 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 652103010567 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 652103010568 TrkA-N domain; Region: TrkA_N; pfam02254 652103010569 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103010570 MarR family; Region: MarR; pfam01047 652103010571 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103010572 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 652103010573 TM-ABC transporter signature motif; other site 652103010574 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103010575 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 652103010576 TM-ABC transporter signature motif; other site 652103010577 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103010578 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103010579 Walker A/P-loop; other site 652103010580 ATP binding site [chemical binding]; other site 652103010581 Q-loop/lid; other site 652103010582 ABC transporter signature motif; other site 652103010583 Walker B; other site 652103010584 D-loop; other site 652103010585 H-loop/switch region; other site 652103010586 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103010587 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103010588 Walker A/P-loop; other site 652103010589 ATP binding site [chemical binding]; other site 652103010590 Q-loop/lid; other site 652103010591 ABC transporter signature motif; other site 652103010592 Walker B; other site 652103010593 D-loop; other site 652103010594 H-loop/switch region; other site 652103010595 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103010596 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010597 metal binding site [ion binding]; metal-binding site 652103010598 active site 652103010599 I-site; other site 652103010600 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 652103010601 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 652103010602 putative ligand binding site [chemical binding]; other site 652103010603 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 652103010604 active site 652103010605 feruloyl-CoA synthase; Reviewed; Region: PRK08180 652103010606 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 652103010607 acyl-activating enzyme (AAE) consensus motif; other site 652103010608 putative AMP binding site [chemical binding]; other site 652103010609 putative active site [active] 652103010610 putative CoA binding site [chemical binding]; other site 652103010611 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 652103010612 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 652103010613 substrate binding site [chemical binding]; other site 652103010614 oxyanion hole (OAH) forming residues; other site 652103010615 trimer interface [polypeptide binding]; other site 652103010616 hypothetical protein; Provisional; Region: PRK00872 652103010617 DctM-like transporters; Region: DctM; pfam06808 652103010618 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 652103010619 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 652103010620 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103010621 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103010622 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 652103010623 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 652103010624 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 652103010625 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 652103010626 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103010627 CoenzymeA binding site [chemical binding]; other site 652103010628 subunit interaction site [polypeptide binding]; other site 652103010629 PHB binding site; other site 652103010630 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 652103010631 amidase; Provisional; Region: PRK07056 652103010632 Amidase; Region: Amidase; cl11426 652103010633 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 652103010634 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 652103010635 DUF35 OB-fold domain; Region: DUF35; pfam01796 652103010636 thiolase; Provisional; Region: PRK06158 652103010637 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 652103010638 active site 652103010639 short chain dehydrogenase; Provisional; Region: PRK07791 652103010640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010641 NAD(P) binding site [chemical binding]; other site 652103010642 active site 652103010643 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 652103010644 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103010645 ligand binding site [chemical binding]; other site 652103010646 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 652103010647 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 652103010648 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 652103010649 Predicted membrane protein [Function unknown]; Region: COG2855 652103010650 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 652103010651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103010652 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 652103010653 putative dimerization interface [polypeptide binding]; other site 652103010654 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 652103010655 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 652103010656 dimer interface [polypeptide binding]; other site 652103010657 phosphorylation site [posttranslational modification] 652103010658 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 652103010659 ATP binding site [chemical binding]; other site 652103010660 G-X-G motif; other site 652103010661 Response regulator receiver domain; Region: Response_reg; pfam00072 652103010662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010663 active site 652103010664 phosphorylation site [posttranslational modification] 652103010665 intermolecular recognition site; other site 652103010666 dimerization interface [polypeptide binding]; other site 652103010667 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 652103010668 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103010669 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103010670 acyl-activating enzyme (AAE) consensus motif; other site 652103010671 putative AMP binding site [chemical binding]; other site 652103010672 putative active site [active] 652103010673 putative CoA binding site [chemical binding]; other site 652103010674 enoyl-CoA hydratase; Provisional; Region: PRK07509 652103010675 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 652103010676 substrate binding site [chemical binding]; other site 652103010677 oxyanion hole (OAH) forming residues; other site 652103010678 trimer interface [polypeptide binding]; other site 652103010679 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 652103010680 short chain dehydrogenase; Provisional; Region: PRK07677 652103010681 NAD(P) binding site [chemical binding]; other site 652103010682 substrate binding site [chemical binding]; other site 652103010683 homotetramer interface [polypeptide binding]; other site 652103010684 active site 652103010685 homodimer interface [polypeptide binding]; other site 652103010686 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 652103010687 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103010688 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103010689 acyl-activating enzyme (AAE) consensus motif; other site 652103010690 acyl-activating enzyme (AAE) consensus motif; other site 652103010691 putative AMP binding site [chemical binding]; other site 652103010692 putative active site [active] 652103010693 putative CoA binding site [chemical binding]; other site 652103010694 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010695 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 652103010696 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103010697 active site 652103010698 enoyl-CoA hydratase; Provisional; Region: PRK06494 652103010699 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 652103010700 substrate binding site [chemical binding]; other site 652103010701 oxyanion hole (OAH) forming residues; other site 652103010702 trimer interface [polypeptide binding]; other site 652103010703 Phosphotransferase enzyme family; Region: APH; pfam01636 652103010704 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 652103010705 putative active site [active] 652103010706 putative substrate binding site [chemical binding]; other site 652103010707 ATP binding site [chemical binding]; other site 652103010708 enoyl-CoA hydratase; Provisional; Region: PRK05981 652103010709 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 652103010710 substrate binding site [chemical binding]; other site 652103010711 oxyanion hole (OAH) forming residues; other site 652103010712 trimer interface [polypeptide binding]; other site 652103010713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010714 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103010715 NAD(P) binding site [chemical binding]; other site 652103010716 active site 652103010717 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 652103010718 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 652103010719 active site 652103010720 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 652103010721 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103010722 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103010723 Walker A/P-loop; other site 652103010724 ATP binding site [chemical binding]; other site 652103010725 Q-loop/lid; other site 652103010726 ABC transporter signature motif; other site 652103010727 Walker B; other site 652103010728 D-loop; other site 652103010729 H-loop/switch region; other site 652103010730 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103010731 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103010732 Walker A/P-loop; other site 652103010733 ATP binding site [chemical binding]; other site 652103010734 Q-loop/lid; other site 652103010735 ABC transporter signature motif; other site 652103010736 Walker B; other site 652103010737 D-loop; other site 652103010738 H-loop/switch region; other site 652103010739 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103010740 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 652103010741 TM-ABC transporter signature motif; other site 652103010742 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 652103010743 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103010744 TM-ABC transporter signature motif; other site 652103010745 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 652103010746 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_6; cd06340 652103010747 putative ligand binding site [chemical binding]; other site 652103010748 hypothetical protein; Provisional; Region: PRK05463 652103010749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103010750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103010751 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 652103010752 dimerization interface [polypeptide binding]; other site 652103010753 allantoate amidohydrolase; Reviewed; Region: PRK09290 652103010754 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 652103010755 active site 652103010756 metal binding site [ion binding]; metal-binding site 652103010757 dimer interface [polypeptide binding]; other site 652103010758 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 652103010759 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 652103010760 NAD binding site [chemical binding]; other site 652103010761 tartrate dehydrogenase; Region: TTC; TIGR02089 652103010762 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 652103010763 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010764 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_10; cd06345 652103010765 putative ligand binding site [chemical binding]; other site 652103010766 short chain dehydrogenase; Provisional; Region: PRK06125 652103010767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010768 active site 652103010769 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 652103010770 beta-galactosidase; Region: BGL; TIGR03356 652103010771 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 652103010772 amidase; Provisional; Region: PRK07486 652103010773 Amidase; Region: Amidase; pfam01425 652103010774 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103010775 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 652103010776 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 652103010777 Fatty acid desaturase; Region: FA_desaturase; pfam00487 652103010778 putative di-iron ligands [ion binding]; other site 652103010779 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 652103010780 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 652103010781 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 652103010782 substrate binding site [chemical binding]; other site 652103010783 dimer interface [polypeptide binding]; other site 652103010784 NADP binding site [chemical binding]; other site 652103010785 catalytic residues [active] 652103010786 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 652103010787 substrate binding site [chemical binding]; other site 652103010788 enoyl-CoA hydratase; Provisional; Region: PRK08140 652103010789 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 652103010790 substrate binding site [chemical binding]; other site 652103010791 oxyanion hole (OAH) forming residues; other site 652103010792 trimer interface [polypeptide binding]; other site 652103010793 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103010794 CoenzymeA binding site [chemical binding]; other site 652103010795 subunit interaction site [polypeptide binding]; other site 652103010796 PHB binding site; other site 652103010797 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103010798 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 652103010799 acyl-activating enzyme (AAE) consensus motif; other site 652103010800 AMP binding site [chemical binding]; other site 652103010801 active site 652103010802 CoA binding site [chemical binding]; other site 652103010803 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 652103010804 transcriptional regulator; Provisional; Region: PRK10632 652103010805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103010806 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 652103010807 putative effector binding pocket; other site 652103010808 putative dimerization interface [polypeptide binding]; other site 652103010809 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 652103010810 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103010811 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010812 metal binding site [ion binding]; metal-binding site 652103010813 active site 652103010814 I-site; other site 652103010815 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 652103010816 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 652103010817 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 652103010818 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103010819 ligand binding site [chemical binding]; other site 652103010820 flexible hinge region; other site 652103010821 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 652103010822 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 652103010823 substrate binding site [chemical binding]; other site 652103010824 oxyanion hole (OAH) forming residues; other site 652103010825 trimer interface [polypeptide binding]; other site 652103010826 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103010827 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103010828 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103010829 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 652103010830 putative FMN binding site [chemical binding]; other site 652103010831 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010832 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 652103010833 FAD binding site [chemical binding]; other site 652103010834 substrate binding site [chemical binding]; other site 652103010835 catalytic base [active] 652103010836 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010837 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 652103010838 FAD binding site [chemical binding]; other site 652103010839 substrate binding site [chemical binding]; other site 652103010840 catalytic base [active] 652103010841 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010842 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103010843 active site 652103010844 acyl-CoA synthetase; Provisional; Region: PRK12582 652103010845 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 652103010846 acyl-activating enzyme (AAE) consensus motif; other site 652103010847 putative AMP binding site [chemical binding]; other site 652103010848 putative active site [active] 652103010849 putative CoA binding site [chemical binding]; other site 652103010850 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 652103010851 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 652103010852 substrate binding site [chemical binding]; other site 652103010853 oxyanion hole (OAH) forming residues; other site 652103010854 trimer interface [polypeptide binding]; other site 652103010855 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 652103010856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010857 NAD(P) binding site [chemical binding]; other site 652103010858 active site 652103010859 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103010860 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103010861 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 652103010862 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 652103010863 dimer interface [polypeptide binding]; other site 652103010864 active site 652103010865 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103010866 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 652103010867 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103010868 acyl-activating enzyme (AAE) consensus motif; other site 652103010869 acyl-activating enzyme (AAE) consensus motif; other site 652103010870 putative AMP binding site [chemical binding]; other site 652103010871 putative active site [active] 652103010872 putative CoA binding site [chemical binding]; other site 652103010873 amidase; Provisional; Region: PRK06170 652103010874 Amidase; Region: Amidase; cl11426 652103010875 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103010876 active site 652103010877 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 652103010878 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 652103010879 Competence-damaged protein; Region: CinA; pfam02464 652103010880 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 652103010881 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 652103010882 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 652103010883 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 652103010884 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103010885 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 652103010886 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 652103010887 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 652103010888 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 652103010889 NAD(P) binding site [chemical binding]; other site 652103010890 catalytic residues [active] 652103010891 choline dehydrogenase; Validated; Region: PRK02106 652103010892 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 652103010893 short chain dehydrogenase; Provisional; Region: PRK06949 652103010894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010895 NAD(P) binding site [chemical binding]; other site 652103010896 active site 652103010897 short chain dehydrogenase; Provisional; Region: PRK08339 652103010898 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 652103010899 putative NAD(P) binding site [chemical binding]; other site 652103010900 putative active site [active] 652103010901 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 652103010902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010903 active site 652103010904 phosphorylation site [posttranslational modification] 652103010905 intermolecular recognition site; other site 652103010906 dimerization interface [polypeptide binding]; other site 652103010907 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103010908 DNA binding residues [nucleotide binding] 652103010909 dimerization interface [polypeptide binding]; other site 652103010910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 652103010911 active site 652103010912 phosphorylation site [posttranslational modification] 652103010913 intermolecular recognition site; other site 652103010914 dimerization interface [polypeptide binding]; other site 652103010915 putative phosphoketolase; Provisional; Region: PRK05261 652103010916 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 652103010917 TPP-binding site; other site 652103010918 XFP C-terminal domain; Region: XFP_C; pfam09363 652103010919 BON domain; Region: BON; pfam04972 652103010920 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 652103010921 BON domain; Region: BON; pfam04972 652103010922 BON domain; Region: BON; pfam04972 652103010923 Protein kinase domain; Region: Pkinase; pfam00069 652103010924 Catalytic domain of Protein Kinases; Region: PKc; cd00180 652103010925 active site 652103010926 ATP binding site [chemical binding]; other site 652103010927 substrate binding site [chemical binding]; other site 652103010928 activation loop (A-loop); other site 652103010929 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103010930 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103010931 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 652103010932 active site 652103010933 metal binding site [ion binding]; metal-binding site 652103010934 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 652103010935 active site 652103010936 metal binding site [ion binding]; metal-binding site 652103010937 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 652103010938 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 652103010939 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 652103010940 FeS/SAM binding site; other site 652103010941 V4R domain; Region: V4R; cl15268 652103010942 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 652103010943 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 652103010944 FeS/SAM binding site; other site 652103010945 HemN C-terminal domain; Region: HemN_C; pfam06969 652103010946 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 652103010947 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103010948 Zn binding site [ion binding]; other site 652103010949 leucine-zipper of insertion element IS481; Region: LZ_Tnp_IS481; pfam13011 652103010950 Winged helix-turn helix; Region: HTH_29; pfam13551 652103010951 DNA-binding interface [nucleotide binding]; DNA binding site 652103010952 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103010953 Helix-turn-helix domain; Region: HTH_38; pfam13936 652103010954 Integrase core domain; Region: rve; pfam00665 652103010955 Integrase core domain; Region: rve_3; pfam13683 652103010956 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 652103010957 putative homodimer interface [polypeptide binding]; other site 652103010958 putative homotetramer interface [polypeptide binding]; other site 652103010959 putative allosteric switch controlling residues; other site 652103010960 putative metal binding site [ion binding]; other site 652103010961 putative homodimer-homodimer interface [polypeptide binding]; other site 652103010962 Uncharacterized conserved protein [Function unknown]; Region: COG3350 652103010963 YHS domain; Region: YHS; pfam04945 652103010964 Uncharacterized conserved protein [Function unknown]; Region: COG3350 652103010965 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 652103010966 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103010967 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 652103010968 motif II; other site 652103010969 Hemerythrin-like domain; Region: Hr-like; cd12108 652103010970 Fe binding site [ion binding]; other site 652103010971 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 652103010972 active site 652103010973 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103010974 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010975 metal binding site [ion binding]; metal-binding site 652103010976 active site 652103010977 I-site; other site 652103010978 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010979 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 652103010980 putative ligand binding site [chemical binding]; other site 652103010981 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 652103010982 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 652103010983 active site 652103010984 catalytic tetrad [active] 652103010985 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_8; cd06343 652103010986 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010987 putative ligand binding site [chemical binding]; other site 652103010988 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 652103010989 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 652103010990 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103010991 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 652103010992 Walker A/P-loop; other site 652103010993 ATP binding site [chemical binding]; other site 652103010994 Q-loop/lid; other site 652103010995 ABC transporter signature motif; other site 652103010996 Walker B; other site 652103010997 D-loop; other site 652103010998 H-loop/switch region; other site 652103010999 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 652103011000 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 652103011001 FtsX-like permease family; Region: FtsX; pfam02687 652103011002 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103011003 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 652103011004 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103011005 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103011006 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 652103011007 catalytic site [active] 652103011008 Protein of unknown function (DUF3222); Region: DUF3222; pfam11519 652103011009 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 652103011010 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 652103011011 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103011012 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103011013 metal binding site [ion binding]; metal-binding site 652103011014 active site 652103011015 I-site; other site 652103011016 Hemerythrin; Region: Hemerythrin; cd12107 652103011017 Fe binding site [ion binding]; other site 652103011018 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103011019 PIN domain; Region: PIN_3; pfam13470 652103011020 Hemerythrin; Region: Hemerythrin; cd12107 652103011021 Fe binding site [ion binding]; other site 652103011022 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 652103011023 PAS domain; Region: PAS_9; pfam13426 652103011024 putative active site [active] 652103011025 heme pocket [chemical binding]; other site 652103011026 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103011027 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103011028 metal binding site [ion binding]; metal-binding site 652103011029 active site 652103011030 I-site; other site 652103011031 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103011032 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103011033 putative substrate translocation pore; other site 652103011034 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 652103011035 FHIPEP family; Region: FHIPEP; pfam00771 652103011036 Anti-sigma-K factor rskA; Region: RskA; pfam10099 652103011037 RNA polymerase sigma factor; Provisional; Region: PRK12514 652103011038 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103011039 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 652103011040 DNA binding residues [nucleotide binding] 652103011041 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 652103011042 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 652103011043 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 652103011044 Walker A motif/ATP binding site; other site 652103011045 Walker B motif; other site 652103011046 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103011047 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011048 active site 652103011049 phosphorylation site [posttranslational modification] 652103011050 intermolecular recognition site; other site 652103011051 dimerization interface [polypeptide binding]; other site 652103011052 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 652103011053 DNA binding site [nucleotide binding] 652103011054 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 652103011055 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 652103011056 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 652103011057 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 652103011058 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011059 active site 652103011060 phosphorylation site [posttranslational modification] 652103011061 intermolecular recognition site; other site 652103011062 dimerization interface [polypeptide binding]; other site 652103011063 CheB methylesterase; Region: CheB_methylest; pfam01339 652103011064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011065 Response regulator receiver domain; Region: Response_reg; pfam00072 652103011066 active site 652103011067 phosphorylation site [posttranslational modification] 652103011068 intermolecular recognition site; other site 652103011069 dimerization interface [polypeptide binding]; other site 652103011070 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 652103011071 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 652103011072 putative binding surface; other site 652103011073 active site 652103011074 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 652103011075 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 652103011076 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 652103011077 ATP binding site [chemical binding]; other site 652103011078 Mg2+ binding site [ion binding]; other site 652103011079 G-X-G motif; other site 652103011080 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 652103011081 CheW-like domain; Region: CheW; pfam01584 652103011082 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103011083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011084 active site 652103011085 phosphorylation site [posttranslational modification] 652103011086 intermolecular recognition site; other site 652103011087 dimerization interface [polypeptide binding]; other site 652103011088 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 652103011089 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 652103011090 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 652103011091 active site 652103011092 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 652103011093 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 652103011094 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 652103011095 hypothetical protein; Validated; Region: PRK07586 652103011096 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103011097 PYR/PP interface [polypeptide binding]; other site 652103011098 dimer interface [polypeptide binding]; other site 652103011099 TPP binding site [chemical binding]; other site 652103011100 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 652103011101 TPP-binding site [chemical binding]; other site 652103011102 dimer interface [polypeptide binding]; other site 652103011103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103011104 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103011105 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 652103011106 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 652103011107 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 652103011108 isovaleryl-CoA dehydrogenase; Region: PLN02519 652103011109 substrate binding site [chemical binding]; other site 652103011110 FAD binding site [chemical binding]; other site 652103011111 catalytic base [active] 652103011112 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 652103011113 Cytochrome P450; Region: p450; cl12078 652103011114 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103011115 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103011116 active site 652103011117 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103011118 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103011119 Uncharacterized conserved protein [Function unknown]; Region: COG3777 652103011120 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 652103011121 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 652103011122 active site 2 [active] 652103011123 active site 1 [active] 652103011124 benzoylformate decarboxylase; Reviewed; Region: PRK07092 652103011125 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103011126 PYR/PP interface [polypeptide binding]; other site 652103011127 dimer interface [polypeptide binding]; other site 652103011128 TPP binding site [chemical binding]; other site 652103011129 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 652103011130 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 652103011131 TPP-binding site [chemical binding]; other site 652103011132 dimer interface [polypeptide binding]; other site 652103011133 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 652103011134 Beta-lactamase; Region: Beta-lactamase; pfam00144 652103011135 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 652103011136 putative ADP-ribose binding site [chemical binding]; other site 652103011137 putative active site [active] 652103011138 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 652103011139 putative GSH binding site [chemical binding]; other site 652103011140 catalytic residues [active] 652103011141 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 652103011142 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 652103011143 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 652103011144 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 652103011145 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 652103011146 Domain of unknown function (DUF427); Region: DUF427; pfam04248 652103011147 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103011148 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 652103011149 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 652103011150 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 652103011151 dimerization interface [polypeptide binding]; other site 652103011152 ATP binding site [chemical binding]; other site 652103011153 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 652103011154 dimerization interface [polypeptide binding]; other site 652103011155 ATP binding site [chemical binding]; other site 652103011156 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 652103011157 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 652103011158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103011159 catalytic residue [active] 652103011160 glutamate racemase; Provisional; Region: PRK00865 652103011161 Cupin domain; Region: Cupin_2; pfam07883 652103011162 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 652103011163 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 652103011164 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 652103011165 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 652103011166 RNA binding surface [nucleotide binding]; other site 652103011167 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 652103011168 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 652103011169 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103011170 catalytic residue [active] 652103011171 classical (c) SDRs; Region: SDR_c; cd05233 652103011172 short chain dehydrogenase; Provisional; Region: PRK05650 652103011173 NAD(P) binding site [chemical binding]; other site 652103011174 active site 652103011175 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 652103011176 YcjX-like family, DUF463; Region: DUF463; pfam04317 652103011177 Domain of unknown function (DUF697); Region: DUF697; cl12064 652103011178 hypothetical protein; Provisional; Region: PRK05415 652103011179 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 652103011180 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 652103011181 catalytic loop [active] 652103011182 iron binding site [ion binding]; other site 652103011183 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 652103011184 cyclase homology domain; Region: CHD; cd07302 652103011185 nucleotidyl binding site; other site 652103011186 metal binding site [ion binding]; metal-binding site 652103011187 dimer interface [polypeptide binding]; other site 652103011188 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 652103011189 Proline dehydrogenase; Region: Pro_dh; pfam01619 652103011190 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 652103011191 Glutamate binding site [chemical binding]; other site 652103011192 NAD binding site [chemical binding]; other site 652103011193 catalytic residues [active] 652103011194 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103011195 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103011196 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 652103011197 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 652103011198 FAD binding pocket [chemical binding]; other site 652103011199 FAD binding motif [chemical binding]; other site 652103011200 phosphate binding motif [ion binding]; other site 652103011201 beta-alpha-beta structure motif; other site 652103011202 NAD binding pocket [chemical binding]; other site 652103011203 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 652103011204 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103011205 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 652103011206 putative C-terminal domain interface [polypeptide binding]; other site 652103011207 putative GSH binding site (G-site) [chemical binding]; other site 652103011208 putative dimer interface [polypeptide binding]; other site 652103011209 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 652103011210 putative N-terminal domain interface [polypeptide binding]; other site 652103011211 putative dimer interface [polypeptide binding]; other site 652103011212 putative substrate binding pocket (H-site) [chemical binding]; other site 652103011213 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 652103011214 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 652103011215 Predicted transcriptional regulator [Transcription]; Region: COG1959 652103011216 Transcriptional regulator; Region: Rrf2; pfam02082 652103011217 Repair protein; Region: Repair_PSII; pfam04536 652103011218 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 652103011219 Repair protein; Region: Repair_PSII; pfam04536 652103011220 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 652103011221 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103011222 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 652103011223 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103011224 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 652103011225 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 652103011226 inhibitor site; inhibition site 652103011227 active site 652103011228 dimer interface [polypeptide binding]; other site 652103011229 catalytic residue [active] 652103011230 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 652103011231 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 652103011232 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 652103011233 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 652103011234 homodimer interface [polypeptide binding]; other site 652103011235 substrate-cofactor binding pocket; other site 652103011236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103011237 catalytic residue [active] 652103011238 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103011239 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 652103011240 Serine hydrolase (FSH1); Region: FSH1; pfam03959 652103011241 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 652103011242 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 652103011243 Walker A motif; other site 652103011244 ATP binding site [chemical binding]; other site 652103011245 Walker B motif; other site 652103011246 arginine finger; other site 652103011247 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 652103011248 multimerization interface [polypeptide binding]; other site 652103011249 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 652103011250 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 652103011251 homodimer interface [polypeptide binding]; other site 652103011252 active site 652103011253 heterodimer interface [polypeptide binding]; other site 652103011254 catalytic residue [active] 652103011255 metal binding site [ion binding]; metal-binding site 652103011256 CHASE domain; Region: CHASE; pfam03924 652103011257 PAS domain S-box; Region: sensory_box; TIGR00229 652103011258 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 652103011259 putative active site [active] 652103011260 heme pocket [chemical binding]; other site 652103011261 PAS domain S-box; Region: sensory_box; TIGR00229 652103011262 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 652103011263 putative active site [active] 652103011264 heme pocket [chemical binding]; other site 652103011265 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103011266 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 652103011267 dimer interface [polypeptide binding]; other site 652103011268 phosphorylation site [posttranslational modification] 652103011269 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 652103011270 ATP binding site [chemical binding]; other site 652103011271 Mg2+ binding site [ion binding]; other site 652103011272 G-X-G motif; other site 652103011273 Response regulator receiver domain; Region: Response_reg; pfam00072 652103011274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011275 active site 652103011276 phosphorylation site [posttranslational modification] 652103011277 intermolecular recognition site; other site 652103011278 dimerization interface [polypeptide binding]; other site 652103011279 Hpt domain; Region: Hpt; pfam01627 652103011280 Response regulator receiver domain; Region: Response_reg; pfam00072 652103011281 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011282 active site 652103011283 phosphorylation site [posttranslational modification] 652103011284 intermolecular recognition site; other site 652103011285 Response regulator receiver domain; Region: Response_reg; pfam00072 652103011286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011287 active site 652103011288 phosphorylation site [posttranslational modification] 652103011289 intermolecular recognition site; other site 652103011290 dimerization interface [polypeptide binding]; other site 652103011291 Response regulator receiver domain; Region: Response_reg; pfam00072 652103011292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011293 active site 652103011294 phosphorylation site [posttranslational modification] 652103011295 intermolecular recognition site; other site 652103011296 dimerization interface [polypeptide binding]; other site 652103011297 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 652103011298 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103011299 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103011300 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 652103011301 putative dimerization interface [polypeptide binding]; other site 652103011302 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 652103011303 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 652103011304 substrate-cofactor binding pocket; other site 652103011305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103011306 catalytic residue [active] 652103011307 putative photosynthetic complex assembly protein 2; Region: photo_alph_chp2; TIGR03055 652103011308 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 652103011309 diiron binding motif [ion binding]; other site 652103011310 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 652103011311 Bacterial PH domain; Region: DUF304; pfam03703 652103011312 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl17581 652103011313 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 652103011314 subunit M interaction residues [polypeptide binding]; other site 652103011315 subunit L interaction residues [polypeptide binding]; other site 652103011316 putative proton transfer pathway, P1; other site 652103011317 putative proton transfer pathway, P2; other site 652103011318 PUCC protein; Region: PUCC; pfam03209 652103011319 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 652103011320 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 652103011321 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 652103011322 S-adenosylmethionine binding site [chemical binding]; other site 652103011323 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 652103011324 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 652103011325 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 652103011326 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 652103011327 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 652103011328 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 652103011329 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 652103011330 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 652103011331 Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_N; cd01979 652103011332 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 652103011333 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 652103011334 B12 binding domain; Region: B12-binding; pfam02310 652103011335 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 652103011336 heme binding pocket [chemical binding]; other site 652103011337 heme ligand [chemical binding]; other site 652103011338 PAS fold; Region: PAS_2; pfam08446 652103011339 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 652103011340 GAF domain; Region: GAF; pfam01590 652103011341 Phytochrome region; Region: PHY; pfam00360 652103011342 PAS domain; Region: PAS_9; pfam13426 652103011343 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 652103011344 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 652103011345 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 652103011346 Cytochrome c; Region: Cytochrom_C; cl11414 652103011347 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 652103011348 TspO/MBR family; Region: TspO_MBR; pfam03073 652103011349 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 652103011350 PUCC protein; Region: PUCC; pfam03209 652103011351 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103011352 putative substrate translocation pore; other site 652103011353 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 652103011354 UbiA prenyltransferase family; Region: UbiA; pfam01040 652103011355 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 652103011356 PAS domain; Region: PAS; smart00091 652103011357 putative active site [active] 652103011358 heme pocket [chemical binding]; other site 652103011359 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 652103011360 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 652103011361 subunit H interface; other site 652103011362 subunit L interface; other site 652103011363 bacteriopheophytin binding site; other site 652103011364 carotenoid binding site; other site 652103011365 bacteriochlorophyll binding site; other site 652103011366 cytochrome C interface; other site 652103011367 quinone binding site; other site 652103011368 Fe binding site [ion binding]; other site 652103011369 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 652103011370 subunit M interface; other site 652103011371 subunit H interface; other site 652103011372 quinone binding site; other site 652103011373 bacteriopheophytin binding site; other site 652103011374 bacteriochlorophyll binding site; other site 652103011375 cytochrome C subunit interface; other site 652103011376 Fe binding site [ion binding]; other site 652103011377 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103011378 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103011379 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 652103011380 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 652103011381 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 652103011382 Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Y; cd01980 652103011383 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 652103011384 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 652103011385 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 652103011386 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 652103011387 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 652103011388 putative NAD(P) binding site [chemical binding]; other site 652103011389 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 652103011390 S-adenosylmethionine binding site [chemical binding]; other site 652103011391 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 652103011392 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 652103011393 substrate binding pocket [chemical binding]; other site 652103011394 chain length determination region; other site 652103011395 substrate-Mg2+ binding site; other site 652103011396 catalytic residues [active] 652103011397 aspartate-rich region 1; other site 652103011398 active site lid residues [active] 652103011399 aspartate-rich region 2; other site 652103011400 phytoene desaturase; Region: crtI_fam; TIGR02734 652103011401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103011402 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 652103011403 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 652103011404 GIY-YIG motif/motif A; other site 652103011405 putative active site [active] 652103011406 putative metal binding site [ion binding]; other site 652103011407 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 652103011408 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 652103011409 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 652103011410 active site lid residues [active] 652103011411 substrate binding pocket [chemical binding]; other site 652103011412 catalytic residues [active] 652103011413 substrate-Mg2+ binding site; other site 652103011414 aspartate-rich region 1; other site 652103011415 aspartate-rich region 2; other site 652103011416 phytoene desaturase; Region: crtI_fam; TIGR02734 652103011417 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103011418 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 652103011419 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 652103011420 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103011421 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 652103011422 substrate binding site [chemical binding]; other site 652103011423 active site 652103011424 PilZ domain; Region: PilZ; pfam07238 652103011425 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 652103011426 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 652103011427 metal ion-dependent adhesion site (MIDAS); other site 652103011428 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 652103011429 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 652103011430 Walker A motif; other site 652103011431 ATP binding site [chemical binding]; other site 652103011432 Walker B motif; other site 652103011433 arginine finger; other site 652103011434 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 652103011435 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 652103011436 domain interfaces; other site 652103011437 active site 652103011438 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 652103011439 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 652103011440 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 652103011441 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 652103011442 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 652103011443 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 652103011444 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103011445 Protein export membrane protein; Region: SecD_SecF; cl14618 652103011446 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 652103011447 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103011448 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 652103011449 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 652103011450 PUCC protein; Region: PUCC; pfam03209 652103011451 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103011452 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103011453 GAF domain; Region: GAF; pfam01590 652103011454 Phytochrome region; Region: PHY; pfam00360 652103011455 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 652103011456 Histidine kinase; Region: HisKA_3; pfam07730 652103011457 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 652103011458 ATP binding site [chemical binding]; other site 652103011459 Mg2+ binding site [ion binding]; other site 652103011460 G-X-G motif; other site 652103011461 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 652103011462 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011463 active site 652103011464 phosphorylation site [posttranslational modification] 652103011465 intermolecular recognition site; other site 652103011466 dimerization interface [polypeptide binding]; other site 652103011467 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103011468 DNA binding residues [nucleotide binding] 652103011469 dimerization interface [polypeptide binding]; other site 652103011470 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103011471 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103011472 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 652103011473 NnrS protein; Region: NnrS; pfam05940 652103011474 NnrU protein; Region: NnrU; pfam07298 652103011475 phosphoglucomutase; Validated; Region: PRK07564 652103011476 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 652103011477 active site 652103011478 substrate binding site [chemical binding]; other site 652103011479 metal binding site [ion binding]; metal-binding site 652103011480 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 652103011481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011482 active site 652103011483 phosphorylation site [posttranslational modification] 652103011484 intermolecular recognition site; other site 652103011485 dimerization interface [polypeptide binding]; other site 652103011486 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 652103011487 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103011488 active site 652103011489 metal binding site [ion binding]; metal-binding site 652103011490 hexamer interface [polypeptide binding]; other site 652103011491 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 652103011492 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103011493 Walker A/P-loop; other site 652103011494 ATP binding site [chemical binding]; other site 652103011495 Q-loop/lid; other site 652103011496 ABC transporter signature motif; other site 652103011497 Walker B; other site 652103011498 D-loop; other site 652103011499 H-loop/switch region; other site 652103011500 TOBE domain; Region: TOBE_2; pfam08402 652103011501 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 652103011502 putative PBP binding loops; other site 652103011503 dimer interface [polypeptide binding]; other site 652103011504 ABC-ATPase subunit interface; other site 652103011505 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 652103011506 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 652103011507 dimer interface [polypeptide binding]; other site 652103011508 conserved gate region; other site 652103011509 ABC-ATPase subunit interface; other site 652103011510 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 652103011511 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 652103011512 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 652103011513 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103011514 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103011515 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 652103011516 dimer interface [polypeptide binding]; other site 652103011517 conserved gate region; other site 652103011518 putative PBP binding loops; other site 652103011519 ABC-ATPase subunit interface; other site 652103011520 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 652103011521 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 652103011522 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 652103011523 dimer interface [polypeptide binding]; other site 652103011524 conserved gate region; other site 652103011525 putative PBP binding loops; other site 652103011526 ABC-ATPase subunit interface; other site 652103011527 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 652103011528 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103011529 Walker A/P-loop; other site 652103011530 ATP binding site [chemical binding]; other site 652103011531 Q-loop/lid; other site 652103011532 ABC transporter signature motif; other site 652103011533 Walker B; other site 652103011534 D-loop; other site 652103011535 H-loop/switch region; other site 652103011536 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 652103011537 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103011538 Walker A/P-loop; other site 652103011539 ATP binding site [chemical binding]; other site 652103011540 Q-loop/lid; other site 652103011541 ABC transporter signature motif; other site 652103011542 Walker B; other site 652103011543 D-loop; other site 652103011544 H-loop/switch region; other site 652103011545 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103011546 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 652103011547 amidase; Provisional; Region: PRK09201 652103011548 Amidase; Region: Amidase; pfam01425 652103011549 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 652103011550 Transcriptional regulators [Transcription]; Region: FadR; COG2186 652103011551 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103011552 DNA-binding site [nucleotide binding]; DNA binding site 652103011553 FCD domain; Region: FCD; pfam07729 652103011554 allophanate hydrolase; Provisional; Region: PRK08186 652103011555 Amidase; Region: Amidase; cl11426 652103011556 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 652103011557 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 652103011558 Cl- selectivity filter; other site 652103011559 Cl- binding residues [ion binding]; other site 652103011560 pore gating glutamate residue; other site 652103011561 dimer interface [polypeptide binding]; other site 652103011562 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 652103011563 Peptidase C26; Region: Peptidase_C26; pfam07722 652103011564 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 652103011565 catalytic triad [active] 652103011566 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 652103011567 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 652103011568 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 652103011569 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 652103011570 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 652103011571 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 652103011572 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 652103011573 metal ion-dependent adhesion site (MIDAS); other site 652103011574 MoxR-like ATPases [General function prediction only]; Region: COG0714 652103011575 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 652103011576 Walker A motif; other site 652103011577 ATP binding site [chemical binding]; other site 652103011578 Walker B motif; other site 652103011579 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 652103011580 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 652103011581 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 652103011582 K-pathway; other site 652103011583 Binuclear center (active site) [active] 652103011584 Putative proton exit pathway; other site 652103011585 Cytochrome c; Region: Cytochrom_C; pfam00034 652103011586 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 652103011587 Subunit I/III interface [polypeptide binding]; other site 652103011588 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 652103011589 active site 1 [active] 652103011590 active site 2 [active] 652103011591 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 652103011592 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103011593 ATP-grasp domain; Region: ATP-grasp_4; cl17255 652103011594 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 652103011595 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 652103011596 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 652103011597 carboxyltransferase (CT) interaction site; other site 652103011598 biotinylation site [posttranslational modification]; other site 652103011599 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 652103011600 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 652103011601 acyl-CoA synthetase; Validated; Region: PRK06178 652103011602 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103011603 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 652103011604 acyl-activating enzyme (AAE) consensus motif; other site 652103011605 putative AMP binding site [chemical binding]; other site 652103011606 putative active site [active] 652103011607 putative CoA binding site [chemical binding]; other site 652103011608 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 652103011609 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 652103011610 dimer interface [polypeptide binding]; other site 652103011611 conserved gate region; other site 652103011612 ABC-ATPase subunit interface; other site 652103011613 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103011614 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 652103011615 dimer interface [polypeptide binding]; other site 652103011616 conserved gate region; other site 652103011617 putative PBP binding loops; other site 652103011618 ABC-ATPase subunit interface; other site 652103011619 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 652103011620 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_9; cd08496 652103011621 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103011622 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 652103011623 Walker A/P-loop; other site 652103011624 ATP binding site [chemical binding]; other site 652103011625 Q-loop/lid; other site 652103011626 ABC transporter signature motif; other site 652103011627 Walker B; other site 652103011628 D-loop; other site 652103011629 H-loop/switch region; other site 652103011630 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 652103011631 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103011632 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 652103011633 Walker A/P-loop; other site 652103011634 ATP binding site [chemical binding]; other site 652103011635 Q-loop/lid; other site 652103011636 ABC transporter signature motif; other site 652103011637 Walker B; other site 652103011638 D-loop; other site 652103011639 H-loop/switch region; other site 652103011640 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103011641 Transcriptional regulators [Transcription]; Region: GntR; COG1802 652103011642 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103011643 DNA-binding site [nucleotide binding]; DNA binding site 652103011644 FCD domain; Region: FCD; pfam07729 652103011645 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 652103011646 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 652103011647 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 652103011648 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103011649 acyl-activating enzyme (AAE) consensus motif; other site 652103011650 AMP binding site [chemical binding]; other site 652103011651 active site 652103011652 CoA binding site [chemical binding]; other site 652103011653 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 652103011654 Helix-turn-helix domain; Region: HTH_38; pfam13936 652103011655 Integrase core domain; Region: rve; pfam00665 652103011656 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 652103011657 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 652103011658 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 652103011659 dimer interface [polypeptide binding]; other site 652103011660 conserved gate region; other site 652103011661 ABC-ATPase subunit interface; other site 652103011662 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 652103011663 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 652103011664 Walker A/P-loop; other site 652103011665 ATP binding site [chemical binding]; other site 652103011666 Q-loop/lid; other site 652103011667 ABC transporter signature motif; other site 652103011668 Walker B; other site 652103011669 D-loop; other site 652103011670 H-loop/switch region; other site 652103011671 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103011672 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 652103011673 serine O-acetyltransferase; Region: cysE; TIGR01172 652103011674 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 652103011675 trimer interface [polypeptide binding]; other site 652103011676 active site 652103011677 substrate binding site [chemical binding]; other site 652103011678 CoA binding site [chemical binding]; other site 652103011679 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 652103011680 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 652103011681 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103011682 catalytic residue [active] 652103011683 YtkA-like; Region: YtkA; pfam13115 652103011684 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 652103011685 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103011686 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 652103011687 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 652103011688 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 652103011689 NAD binding site [chemical binding]; other site 652103011690 catalytic Zn binding site [ion binding]; other site 652103011691 structural Zn binding site [ion binding]; other site 652103011692 Domain of unknown function (DUF892); Region: DUF892; pfam05974 652103011693 Isochorismatase family; Region: Isochorismatase; pfam00857 652103011694 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 652103011695 catalytic triad [active] 652103011696 conserved cis-peptide bond; other site 652103011697 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 652103011698 classical (c) SDRs; Region: SDR_c; cd05233 652103011699 NAD(P) binding site [chemical binding]; other site 652103011700 active site 652103011701 Protein of unknown function DUF72; Region: DUF72; pfam01904 652103011702 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 652103011703 dimanganese center [ion binding]; other site 652103011704 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103011705 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 652103011706 ligand binding site [chemical binding]; other site 652103011707 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 652103011708 putative switch regulator; other site 652103011709 non-specific DNA interactions [nucleotide binding]; other site 652103011710 DNA binding site [nucleotide binding] 652103011711 sequence specific DNA binding site [nucleotide binding]; other site 652103011712 putative cAMP binding site [chemical binding]; other site 652103011713 hypothetical protein; Provisional; Region: PRK13559 652103011714 HWE histidine kinase; Region: HWE_HK; smart00911 652103011715 response regulator; Provisional; Region: PRK13435 652103011716 short chain dehydrogenase; Provisional; Region: PRK06701 652103011717 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 652103011718 NAD binding site [chemical binding]; other site 652103011719 metal binding site [ion binding]; metal-binding site 652103011720 active site 652103011721 Domain of unknown function (DUF378); Region: DUF378; pfam04070 652103011722 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 652103011723 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 652103011724 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 652103011725 substrate binding site [chemical binding]; other site 652103011726 oxyanion hole (OAH) forming residues; other site 652103011727 trimer interface [polypeptide binding]; other site 652103011728 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103011729 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 652103011730 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 652103011731 NAD binding site [chemical binding]; other site 652103011732 catalytic Zn binding site [ion binding]; other site 652103011733 substrate binding site [chemical binding]; other site 652103011734 structural Zn binding site [ion binding]; other site 652103011735 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103011736 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 652103011737 ligand binding site [chemical binding]; other site 652103011738 flexible hinge region; other site 652103011739 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 652103011740 4-hydroxybenzoyl-CoA reductase, beta subunit; Region: 4hydrxCoA_B; TIGR03195 652103011741 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 652103011742 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 652103011743 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 652103011744 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103011745 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 652103011746 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 652103011747 catalytic loop [active] 652103011748 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 652103011749 iron binding site [ion binding]; other site 652103011750 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 652103011751 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 652103011752 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 652103011753 dimer interface [polypeptide binding]; other site 652103011754 acyl-activating enzyme (AAE) consensus motif; other site 652103011755 putative active site [active] 652103011756 putative AMP binding site [chemical binding]; other site 652103011757 putative CoA binding site [chemical binding]; other site 652103011758 chemical substrate binding site [chemical binding]; other site 652103011759 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103011760 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 652103011761 putative ligand binding site [chemical binding]; other site 652103011762 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103011763 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 652103011764 TM-ABC transporter signature motif; other site 652103011765 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103011766 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 652103011767 TM-ABC transporter signature motif; other site 652103011768 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103011769 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103011770 Walker A/P-loop; other site 652103011771 ATP binding site [chemical binding]; other site 652103011772 Q-loop/lid; other site 652103011773 ABC transporter signature motif; other site 652103011774 Walker B; other site 652103011775 D-loop; other site 652103011776 H-loop/switch region; other site 652103011777 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103011778 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103011779 Walker A/P-loop; other site 652103011780 ATP binding site [chemical binding]; other site 652103011781 Q-loop/lid; other site 652103011782 ABC transporter signature motif; other site 652103011783 Walker B; other site 652103011784 D-loop; other site 652103011785 H-loop/switch region; other site 652103011786 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103011787 Coenzyme A binding pocket [chemical binding]; other site 652103011788 Rrf2 family protein; Region: rrf2_super; TIGR00738 652103011789 Transcriptional regulator; Region: Rrf2; pfam02082 652103011790 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 652103011791 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 652103011792 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 652103011793 dimer interface [polypeptide binding]; other site 652103011794 acyl-activating enzyme (AAE) consensus motif; other site 652103011795 putative active site [active] 652103011796 putative AMP binding site [chemical binding]; other site 652103011797 putative CoA binding site [chemical binding]; other site 652103011798 chemical substrate binding site [chemical binding]; other site 652103011799 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 652103011800 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 652103011801 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 652103011802 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 652103011803 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 652103011804 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 652103011805 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103011806 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 652103011807 putative NAD(P) binding site [chemical binding]; other site 652103011808 structural Zn binding site [ion binding]; other site 652103011809 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103011810 MarR family; Region: MarR_2; pfam12802 652103011811 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 652103011812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103011813 NAD(P) binding site [chemical binding]; other site 652103011814 active site 652103011815 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 652103011816 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 652103011817 substrate binding site [chemical binding]; other site 652103011818 oxyanion hole (OAH) forming residues; other site 652103011819 trimer interface [polypeptide binding]; other site 652103011820 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 652103011821 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103011822 active site 652103011823 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 652103011824 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 652103011825 acyl-activating enzyme (AAE) consensus motif; other site 652103011826 putative AMP binding site [chemical binding]; other site 652103011827 putative active site [active] 652103011828 putative CoA binding site [chemical binding]; other site 652103011829 enoyl-CoA hydratase; Provisional; Region: PRK05862 652103011830 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 652103011831 substrate binding site [chemical binding]; other site 652103011832 oxyanion hole (OAH) forming residues; other site 652103011833 trimer interface [polypeptide binding]; other site 652103011834 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103011835 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 652103011836 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 652103011837 active site 652103011838 catalytic site [active] 652103011839 metal binding site [ion binding]; metal-binding site 652103011840 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 652103011841 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 652103011842 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 652103011843 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 652103011844 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 652103011845 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 652103011846 Calx-beta domain; Region: Calx-beta; cl02522 652103011847 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 652103011848 generic binding surface II; other site 652103011849 generic binding surface I; other site 652103011850 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 652103011851 putative catalytic site [active] 652103011852 putative metal binding site [ion binding]; other site 652103011853 putative phosphate binding site [ion binding]; other site 652103011854 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 652103011855 Synechococcus sp. strain PCC 7942 PhoA and related proteins, N-terminal metallophosphatase domain; Region: MPP_PhoA_N; cd08162 652103011856 putative active site [active] 652103011857 putative metal binding site [ion binding]; other site 652103011858 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 652103011859 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103011860 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 652103011861 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 652103011862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103011863 Walker A/P-loop; other site 652103011864 ATP binding site [chemical binding]; other site 652103011865 Q-loop/lid; other site 652103011866 ABC transporter signature motif; other site 652103011867 Walker B; other site 652103011868 D-loop; other site 652103011869 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 652103011870 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103011871 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103011872 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 652103011873 Staphylococcal nuclease homologues; Region: SNc; smart00318 652103011874 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103011875 Catalytic site; other site 652103011876 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 652103011877 S-adenosylmethionine binding site [chemical binding]; other site 652103011878 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 652103011879 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 652103011880 Ligand Binding Site [chemical binding]; other site 652103011881 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 652103011882 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 652103011883 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 652103011884 Transglycosylase SLT domain; Region: SLT_2; pfam13406 652103011885 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 652103011886 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103011887 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 652103011888 intracellular protease, PfpI family; Region: PfpI; TIGR01382 652103011889 proposed catalytic triad [active] 652103011890 conserved cys residue [active] 652103011891 nif11 domain/cupin domain protein; Region: nif11_cupin; TIGR03890 652103011892 Cupin domain; Region: Cupin_2; cl17218 652103011893 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 652103011894 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 652103011895 dimer interface [polypeptide binding]; other site 652103011896 active site 652103011897 CoA binding pocket [chemical binding]; other site 652103011898 hypothetical protein; Provisional; Region: PRK06194 652103011899 classical (c) SDRs; Region: SDR_c; cd05233 652103011900 NAD(P) binding site [chemical binding]; other site 652103011901 active site 652103011902 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 652103011903 dimerization interface [polypeptide binding]; other site 652103011904 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103011905 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103011906 metal binding site [ion binding]; metal-binding site 652103011907 active site 652103011908 I-site; other site 652103011909 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 652103011910 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103011911 Histidine kinase; Region: HisKA_2; pfam07568 652103011912 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 652103011913 ATP binding site [chemical binding]; other site 652103011914 Mg2+ binding site [ion binding]; other site 652103011915 G-X-G motif; other site 652103011916 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 652103011917 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 652103011918 sequence-specific DNA binding site [nucleotide binding]; other site 652103011919 salt bridge; other site 652103011920 YcfA-like protein; Region: YcfA; pfam07927 652103011921 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 652103011922 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 652103011923 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 652103011924 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 652103011925 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 652103011926 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103011927 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 652103011928 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 652103011929 DNA binding residues [nucleotide binding] 652103011930 DNA primase, catalytic core; Region: dnaG; TIGR01391 652103011931 CHC2 zinc finger; Region: zf-CHC2; cl17510 652103011932 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 652103011933 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 652103011934 active site 652103011935 metal binding site [ion binding]; metal-binding site 652103011936 interdomain interaction site; other site 652103011937 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 652103011938 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 652103011939 Zn binding site [ion binding]; other site 652103011940 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 652103011941 putative active site pocket [active] 652103011942 dimerization interface [polypeptide binding]; other site 652103011943 putative catalytic residue [active] 652103011944 N-formylglutamate amidohydrolase; Region: FGase; cl01522 652103011945 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 652103011946 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 652103011947 Yqey-like protein; Region: YqeY; pfam09424 652103011948 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103011949 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 652103011950 catalytic site [active] 652103011951 Serine hydrolase (FSH1); Region: FSH1; pfam03959 652103011952 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 652103011953 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 652103011954 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 652103011955 catalytic site [active] 652103011956 subunit interface [polypeptide binding]; other site 652103011957 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103011958 CoenzymeA binding site [chemical binding]; other site 652103011959 subunit interaction site [polypeptide binding]; other site 652103011960 PHB binding site; other site 652103011961 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 652103011962 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 652103011963 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 652103011964 dimerization interface [polypeptide binding]; other site 652103011965 DPS ferroxidase diiron center [ion binding]; other site 652103011966 ion pore; other site 652103011967 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 652103011968 S-adenosylmethionine binding site [chemical binding]; other site 652103011969 AAA domain; Region: AAA_30; pfam13604 652103011970 Family description; Region: UvrD_C_2; pfam13538 652103011971 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 652103011972 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 652103011973 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 652103011974 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 652103011975 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 652103011976 Walker A motif; other site 652103011977 ATP binding site [chemical binding]; other site 652103011978 Walker B motif; other site 652103011979 arginine finger; other site 652103011980 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 652103011981 flagellar motor switch protein; Reviewed; Region: PRK08916 652103011982 flagellar assembly protein H; Validated; Region: fliH; PRK06032 652103011983 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 652103011984 MgtE intracellular N domain; Region: MgtE_N; cl15244 652103011985 FliG C-terminal domain; Region: FliG_C; pfam01706 652103011986 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 652103011987 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 652103011988 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 652103011989 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 652103011990 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 652103011991 FAD binding domain; Region: FAD_binding_4; pfam01565 652103011992 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103011993 Ligand Binding Site [chemical binding]; other site 652103011994 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103011995 Ligand Binding Site [chemical binding]; other site 652103011996 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 652103011997 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 652103011998 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103011999 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 652103012000 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 652103012001 motif II; other site 652103012002 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 652103012003 cobalamin synthase; Reviewed; Region: cobS; PRK00235 652103012004 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 652103012005 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 652103012006 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 652103012007 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103012008 Walker A/P-loop; other site 652103012009 ATP binding site [chemical binding]; other site 652103012010 Q-loop/lid; other site 652103012011 ABC transporter signature motif; other site 652103012012 Walker B; other site 652103012013 D-loop; other site 652103012014 H-loop/switch region; other site 652103012015 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 652103012016 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103012017 Walker A/P-loop; other site 652103012018 ATP binding site [chemical binding]; other site 652103012019 Q-loop/lid; other site 652103012020 ABC transporter signature motif; other site 652103012021 Walker B; other site 652103012022 D-loop; other site 652103012023 H-loop/switch region; other site 652103012024 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103012025 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 652103012026 TM-ABC transporter signature motif; other site 652103012027 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103012028 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 652103012029 TM-ABC transporter signature motif; other site 652103012030 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103012031 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 652103012032 putative ligand binding site [chemical binding]; other site 652103012033 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 652103012034 Na binding site [ion binding]; other site 652103012035 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103012036 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 652103012037 dimer interface [polypeptide binding]; other site 652103012038 phosphorylation site [posttranslational modification] 652103012039 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 652103012040 ATP binding site [chemical binding]; other site 652103012041 Mg2+ binding site [ion binding]; other site 652103012042 G-X-G motif; other site 652103012043 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103012044 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012045 active site 652103012046 phosphorylation site [posttranslational modification] 652103012047 intermolecular recognition site; other site 652103012048 dimerization interface [polypeptide binding]; other site 652103012049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012050 Response regulator receiver domain; Region: Response_reg; pfam00072 652103012051 active site 652103012052 phosphorylation site [posttranslational modification] 652103012053 intermolecular recognition site; other site 652103012054 dimerization interface [polypeptide binding]; other site 652103012055 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103012056 DNA binding residues [nucleotide binding] 652103012057 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 652103012058 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 652103012059 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 652103012060 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103012061 acyl-activating enzyme (AAE) consensus motif; other site 652103012062 AMP binding site [chemical binding]; other site 652103012063 active site 652103012064 CoA binding site [chemical binding]; other site 652103012065 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 652103012066 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 652103012067 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 652103012068 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 652103012069 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 652103012070 enoyl-CoA hydratase; Provisional; Region: PRK08290 652103012071 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 652103012072 substrate binding site [chemical binding]; other site 652103012073 oxyanion hole (OAH) forming residues; other site 652103012074 trimer interface [polypeptide binding]; other site 652103012075 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 652103012076 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103012077 active site 652103012078 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 652103012079 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103012080 active site 652103012081 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103012082 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 652103012083 acyl-activating enzyme (AAE) consensus motif; other site 652103012084 AMP binding site [chemical binding]; other site 652103012085 active site 652103012086 CoA binding site [chemical binding]; other site 652103012087 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 652103012088 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 652103012089 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 652103012090 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 652103012091 TPP-binding site [chemical binding]; other site 652103012092 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 652103012093 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 652103012094 dimer interface [polypeptide binding]; other site 652103012095 PYR/PP interface [polypeptide binding]; other site 652103012096 TPP binding site [chemical binding]; other site 652103012097 substrate binding site [chemical binding]; other site 652103012098 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 652103012099 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 652103012100 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 652103012101 Uncharacterized conserved protein [Function unknown]; Region: COG1432 652103012102 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 652103012103 putative metal binding site [ion binding]; other site 652103012104 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 652103012105 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 652103012106 mce related protein; Region: MCE; pfam02470 652103012107 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 652103012108 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 652103012109 Walker A/P-loop; other site 652103012110 ATP binding site [chemical binding]; other site 652103012111 Q-loop/lid; other site 652103012112 ABC transporter signature motif; other site 652103012113 Walker B; other site 652103012114 D-loop; other site 652103012115 H-loop/switch region; other site 652103012116 STAS domain; Region: STAS_2; pfam13466 652103012117 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 652103012118 Permease; Region: Permease; pfam02405 652103012119 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 652103012120 active site 652103012121 MFS_1 like family; Region: MFS_1_like; pfam12832 652103012122 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 652103012123 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 652103012124 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 652103012125 tetramer interface [polypeptide binding]; other site 652103012126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103012127 catalytic residue [active] 652103012128 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103012129 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 652103012130 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103012131 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 652103012132 putative active site [active] 652103012133 putative metal binding site [ion binding]; other site 652103012134 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 652103012135 S-adenosylmethionine binding site [chemical binding]; other site 652103012136 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 652103012137 dimer interface [polypeptide binding]; other site 652103012138 substrate binding site [chemical binding]; other site 652103012139 ATP binding site [chemical binding]; other site 652103012140 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 652103012141 AsnC family; Region: AsnC_trans_reg; pfam01037 652103012142 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 652103012143 Cytochrome c; Region: Cytochrom_C; pfam00034 652103012144 Cytochrome C' Region: Cytochrom_C_2; pfam01322 652103012145 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103012146 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 652103012147 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103012148 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 652103012149 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 652103012150 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 652103012151 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 652103012152 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 652103012153 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 652103012154 inhibitor-cofactor binding pocket; inhibition site 652103012155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103012156 catalytic residue [active] 652103012157 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 652103012158 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 652103012159 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 652103012160 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 652103012161 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 652103012162 putative NAD(P) binding site [chemical binding]; other site 652103012163 active site 652103012164 putative substrate binding site [chemical binding]; other site 652103012165 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 652103012166 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 652103012167 Mg++ binding site [ion binding]; other site 652103012168 putative catalytic motif [active] 652103012169 putative substrate binding site [chemical binding]; other site 652103012170 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 652103012171 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 652103012172 NAD(P) binding site [chemical binding]; other site 652103012173 homodimer interface [polypeptide binding]; other site 652103012174 substrate binding site [chemical binding]; other site 652103012175 active site 652103012176 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 652103012177 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 652103012178 putative ribose interaction site [chemical binding]; other site 652103012179 putative ADP binding site [chemical binding]; other site 652103012180 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 652103012181 active site 652103012182 nucleotide binding site [chemical binding]; other site 652103012183 HIGH motif; other site 652103012184 KMSKS motif; other site 652103012185 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 652103012186 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 652103012187 NADP binding site [chemical binding]; other site 652103012188 homopentamer interface [polypeptide binding]; other site 652103012189 substrate binding site [chemical binding]; other site 652103012190 active site 652103012191 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 652103012192 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 652103012193 putative active site [active] 652103012194 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 652103012195 active site 652103012196 dimer interface [polypeptide binding]; other site 652103012197 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 652103012198 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 652103012199 active site 652103012200 motif I; other site 652103012201 motif II; other site 652103012202 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 652103012203 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 652103012204 putative active site [active] 652103012205 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 652103012206 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 652103012207 NAD binding site [chemical binding]; other site 652103012208 homodimer interface [polypeptide binding]; other site 652103012209 active site 652103012210 substrate binding site [chemical binding]; other site 652103012211 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 652103012212 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 652103012213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103012214 Walker A/P-loop; other site 652103012215 ATP binding site [chemical binding]; other site 652103012216 Q-loop/lid; other site 652103012217 ABC transporter signature motif; other site 652103012218 Walker B; other site 652103012219 D-loop; other site 652103012220 H-loop/switch region; other site 652103012221 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 652103012222 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 652103012223 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 652103012224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012225 NAD(P) binding site [chemical binding]; other site 652103012226 active site 652103012227 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 652103012228 Part of AAA domain; Region: AAA_19; pfam13245 652103012229 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 652103012230 AAA domain; Region: AAA_12; pfam13087 652103012231 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 652103012232 putative active site [active] 652103012233 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 652103012234 PAS fold; Region: PAS_7; pfam12860 652103012235 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103012236 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103012237 metal binding site [ion binding]; metal-binding site 652103012238 active site 652103012239 I-site; other site 652103012240 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 652103012241 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 652103012242 ATP binding site [chemical binding]; other site 652103012243 putative Mg++ binding site [ion binding]; other site 652103012244 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 652103012245 nucleotide binding region [chemical binding]; other site 652103012246 ATP-binding site [chemical binding]; other site 652103012247 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 652103012248 RNA binding site [nucleotide binding]; other site 652103012249 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103012250 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103012251 active site 652103012252 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 652103012253 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 652103012254 RNA polymerase factor sigma-70; Validated; Region: PRK09047 652103012255 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 652103012256 DNA binding residues [nucleotide binding] 652103012257 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 652103012258 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 652103012259 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 652103012260 ABC-ATPase subunit interface; other site 652103012261 dimer interface [polypeptide binding]; other site 652103012262 putative PBP binding regions; other site 652103012263 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 652103012264 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 652103012265 ABC-ATPase subunit interface; other site 652103012266 dimer interface [polypeptide binding]; other site 652103012267 putative PBP binding regions; other site 652103012268 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 652103012269 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 652103012270 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 652103012271 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 652103012272 metal binding site [ion binding]; metal-binding site 652103012273 manganese transport regulator MntR; Provisional; Region: PRK11050 652103012274 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 652103012275 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 652103012276 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103012277 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 652103012278 dimerization interface [polypeptide binding]; other site 652103012279 macrophage migration inhibition factor-like protein; Provisional; Region: PTZ00397 652103012280 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 652103012281 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 652103012282 active site 1 [active] 652103012283 dimer interface [polypeptide binding]; other site 652103012284 hexamer interface [polypeptide binding]; other site 652103012285 active site 2 [active] 652103012286 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 652103012287 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 652103012288 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 652103012289 homotetramer interface [polypeptide binding]; other site 652103012290 ligand binding site [chemical binding]; other site 652103012291 catalytic site [active] 652103012292 NAD binding site [chemical binding]; other site 652103012293 S-adenosylmethionine synthetase; Validated; Region: PRK05250 652103012294 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 652103012295 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 652103012296 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 652103012297 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 652103012298 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 652103012299 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 652103012300 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 652103012301 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 652103012302 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 652103012303 putative ligand binding site [chemical binding]; other site 652103012304 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 652103012305 TM-ABC transporter signature motif; other site 652103012306 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103012307 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 652103012308 TM-ABC transporter signature motif; other site 652103012309 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103012310 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103012311 Walker A/P-loop; other site 652103012312 ATP binding site [chemical binding]; other site 652103012313 Q-loop/lid; other site 652103012314 ABC transporter signature motif; other site 652103012315 Walker B; other site 652103012316 D-loop; other site 652103012317 H-loop/switch region; other site 652103012318 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103012319 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103012320 Walker A/P-loop; other site 652103012321 ATP binding site [chemical binding]; other site 652103012322 Q-loop/lid; other site 652103012323 ABC transporter signature motif; other site 652103012324 Walker B; other site 652103012325 D-loop; other site 652103012326 H-loop/switch region; other site 652103012327 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 652103012328 substrate binding site [chemical binding]; other site 652103012329 THF binding site; other site 652103012330 zinc-binding site [ion binding]; other site 652103012331 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103012332 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103012333 Walker A/P-loop; other site 652103012334 ATP binding site [chemical binding]; other site 652103012335 Q-loop/lid; other site 652103012336 ABC transporter signature motif; other site 652103012337 Walker B; other site 652103012338 D-loop; other site 652103012339 H-loop/switch region; other site 652103012340 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103012341 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103012342 Walker A/P-loop; other site 652103012343 ATP binding site [chemical binding]; other site 652103012344 Q-loop/lid; other site 652103012345 ABC transporter signature motif; other site 652103012346 Walker B; other site 652103012347 D-loop; other site 652103012348 H-loop/switch region; other site 652103012349 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103012350 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 652103012351 TM-ABC transporter signature motif; other site 652103012352 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103012353 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 652103012354 TM-ABC transporter signature motif; other site 652103012355 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103012356 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 652103012357 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 652103012358 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 652103012359 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 652103012360 putative active site [active] 652103012361 putative substrate binding site [chemical binding]; other site 652103012362 putative cosubstrate binding site; other site 652103012363 catalytic site [active] 652103012364 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 652103012365 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 652103012366 active site 652103012367 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103012368 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 652103012369 putative ligand binding site [chemical binding]; other site 652103012370 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 652103012371 TM-ABC transporter signature motif; other site 652103012372 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103012373 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 652103012374 TM-ABC transporter signature motif; other site 652103012375 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103012376 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103012377 Walker A/P-loop; other site 652103012378 ATP binding site [chemical binding]; other site 652103012379 Q-loop/lid; other site 652103012380 ABC transporter signature motif; other site 652103012381 Walker B; other site 652103012382 D-loop; other site 652103012383 H-loop/switch region; other site 652103012384 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103012385 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103012386 Walker A/P-loop; other site 652103012387 ATP binding site [chemical binding]; other site 652103012388 Q-loop/lid; other site 652103012389 ABC transporter signature motif; other site 652103012390 Walker B; other site 652103012391 D-loop; other site 652103012392 H-loop/switch region; other site 652103012393 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 652103012394 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 652103012395 DNA binding residues [nucleotide binding] 652103012396 putative dimer interface [polypeptide binding]; other site 652103012397 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103012398 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103012399 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103012400 Walker A/P-loop; other site 652103012401 ATP binding site [chemical binding]; other site 652103012402 Q-loop/lid; other site 652103012403 ABC transporter signature motif; other site 652103012404 Walker B; other site 652103012405 D-loop; other site 652103012406 H-loop/switch region; other site 652103012407 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 652103012408 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103012409 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 652103012410 acyl-activating enzyme (AAE) consensus motif; other site 652103012411 putative AMP binding site [chemical binding]; other site 652103012412 putative active site [active] 652103012413 putative CoA binding site [chemical binding]; other site 652103012414 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103012415 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 652103012416 TM-ABC transporter signature motif; other site 652103012417 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103012418 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 652103012419 TM-ABC transporter signature motif; other site 652103012420 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103012421 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 652103012422 putative ligand binding site [chemical binding]; other site 652103012423 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103012424 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103012425 Walker A/P-loop; other site 652103012426 ATP binding site [chemical binding]; other site 652103012427 Q-loop/lid; other site 652103012428 ABC transporter signature motif; other site 652103012429 Walker B; other site 652103012430 D-loop; other site 652103012431 H-loop/switch region; other site 652103012432 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 652103012433 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103012434 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 652103012435 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 652103012436 substrate binding site; other site 652103012437 tetramer interface; other site 652103012438 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_4; cd03795 652103012439 putative ADP-binding pocket [chemical binding]; other site 652103012440 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103012441 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 652103012442 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 652103012443 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 652103012444 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 652103012445 Walker A/P-loop; other site 652103012446 ATP binding site [chemical binding]; other site 652103012447 Q-loop/lid; other site 652103012448 ABC transporter signature motif; other site 652103012449 Walker B; other site 652103012450 D-loop; other site 652103012451 H-loop/switch region; other site 652103012452 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 652103012453 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103012454 putative homodimer interface [polypeptide binding]; other site 652103012455 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 652103012456 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 652103012457 active site 652103012458 homodimer interface [polypeptide binding]; other site 652103012459 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 652103012460 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 652103012461 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103012462 acyl-activating enzyme (AAE) consensus motif; other site 652103012463 active site 652103012464 AMP binding site [chemical binding]; other site 652103012465 CoA binding site [chemical binding]; other site 652103012466 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 652103012467 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103012468 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 652103012469 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 652103012470 NADP binding site [chemical binding]; other site 652103012471 active site 652103012472 putative substrate binding site [chemical binding]; other site 652103012473 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 652103012474 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 652103012475 NAD binding site [chemical binding]; other site 652103012476 substrate binding site [chemical binding]; other site 652103012477 homodimer interface [polypeptide binding]; other site 652103012478 active site 652103012479 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 652103012480 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103012481 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 652103012482 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 652103012483 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103012484 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 652103012485 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 652103012486 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103012487 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 652103012488 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 652103012489 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 652103012490 NADP-binding site; other site 652103012491 homotetramer interface [polypeptide binding]; other site 652103012492 substrate binding site [chemical binding]; other site 652103012493 homodimer interface [polypeptide binding]; other site 652103012494 active site 652103012495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012496 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 652103012497 NAD(P) binding site [chemical binding]; other site 652103012498 active site 652103012499 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 652103012500 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 652103012501 Substrate binding site; other site 652103012502 Cupin domain; Region: Cupin_2; cl17218 652103012503 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 652103012504 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 652103012505 active site 652103012506 substrate binding site [chemical binding]; other site 652103012507 metal binding site [ion binding]; metal-binding site 652103012508 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 652103012509 methionine sulfoxide reductase B; Provisional; Region: PRK00222 652103012510 SelR domain; Region: SelR; pfam01641 652103012511 methionine sulfoxide reductase A; Provisional; Region: PRK13014 652103012512 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 652103012513 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103012514 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 652103012515 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 652103012516 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103012517 ATP-grasp domain; Region: ATP-grasp_4; cl17255 652103012518 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 652103012519 IMP binding site; other site 652103012520 dimer interface [polypeptide binding]; other site 652103012521 interdomain contacts; other site 652103012522 partial ornithine binding site; other site 652103012523 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 652103012524 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 652103012525 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 652103012526 Predicted membrane protein [Function unknown]; Region: COG2259 652103012527 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 652103012528 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 652103012529 putative DNA binding site [nucleotide binding]; other site 652103012530 putative Zn2+ binding site [ion binding]; other site 652103012531 AsnC family; Region: AsnC_trans_reg; pfam01037 652103012532 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 652103012533 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 652103012534 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103012535 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103012536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103012537 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 652103012538 putative effector binding pocket; other site 652103012539 dimerization interface [polypeptide binding]; other site 652103012540 AAA domain; Region: AAA_31; pfam13614 652103012541 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 652103012542 P-loop; other site 652103012543 Magnesium ion binding site [ion binding]; other site 652103012544 phasin; Region: phasin_2; TIGR01985 652103012545 Phasin protein; Region: Phasin_2; cl11491 652103012546 PAS domain; Region: PAS_8; pfam13188 652103012547 PAS domain; Region: PAS_9; pfam13426 652103012548 PAS domain; Region: PAS_8; pfam13188 652103012549 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 652103012550 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 652103012551 putative active site [active] 652103012552 heme pocket [chemical binding]; other site 652103012553 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 652103012554 dimer interface [polypeptide binding]; other site 652103012555 phosphorylation site [posttranslational modification] 652103012556 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 652103012557 ATP binding site [chemical binding]; other site 652103012558 Mg2+ binding site [ion binding]; other site 652103012559 G-X-G motif; other site 652103012560 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 652103012561 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 652103012562 putative active site [active] 652103012563 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103012564 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 652103012565 ligand binding site [chemical binding]; other site 652103012566 flexible hinge region; other site 652103012567 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 652103012568 putative switch regulator; other site 652103012569 non-specific DNA interactions [nucleotide binding]; other site 652103012570 DNA binding site [nucleotide binding] 652103012571 sequence specific DNA binding site [nucleotide binding]; other site 652103012572 putative cAMP binding site [chemical binding]; other site 652103012573 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 652103012574 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 652103012575 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 652103012576 Multicopper oxidase; Region: Cu-oxidase; pfam00394 652103012577 Uncharacterized conserved protein [Function unknown]; Region: COG1262 652103012578 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 652103012579 thymidine phosphorylase; Provisional; Region: PRK04350 652103012580 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 652103012581 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 652103012582 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 652103012583 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 652103012584 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 652103012585 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103012586 active site 652103012587 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 652103012588 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 652103012589 Beta-Casp domain; Region: Beta-Casp; smart01027 652103012590 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 652103012591 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 652103012592 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 652103012593 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 652103012594 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 652103012595 dimer interface [polypeptide binding]; other site 652103012596 conserved gate region; other site 652103012597 ABC-ATPase subunit interface; other site 652103012598 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 652103012599 putative PBP binding loops; other site 652103012600 ABC-ATPase subunit interface; other site 652103012601 pyrimidine utilization protein D; Region: RutD; TIGR03611 652103012602 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 652103012603 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103012604 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103012605 Walker A/P-loop; other site 652103012606 ATP binding site [chemical binding]; other site 652103012607 Q-loop/lid; other site 652103012608 ABC transporter signature motif; other site 652103012609 Walker B; other site 652103012610 D-loop; other site 652103012611 H-loop/switch region; other site 652103012612 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103012613 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 652103012614 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103012615 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 652103012616 dimer interface [polypeptide binding]; other site 652103012617 conserved gate region; other site 652103012618 putative PBP binding loops; other site 652103012619 ABC-ATPase subunit interface; other site 652103012620 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 652103012621 homotrimer interaction site [polypeptide binding]; other site 652103012622 putative active site [active] 652103012623 Isochorismatase family; Region: Isochorismatase; pfam00857 652103012624 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 652103012625 catalytic triad [active] 652103012626 conserved cis-peptide bond; other site 652103012627 NMT1/THI5 like; Region: NMT1; pfam09084 652103012628 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 652103012629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103012630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103012631 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 652103012632 dimerization interface [polypeptide binding]; other site 652103012633 FtsH Extracellular; Region: FtsH_ext; pfam06480 652103012634 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 652103012635 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 652103012636 Walker A motif; other site 652103012637 ATP binding site [chemical binding]; other site 652103012638 Walker B motif; other site 652103012639 arginine finger; other site 652103012640 Peptidase family M41; Region: Peptidase_M41; pfam01434 652103012641 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 652103012642 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 652103012643 AsmA family; Region: AsmA; pfam05170 652103012644 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 652103012645 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 652103012646 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 652103012647 dimer interface [polypeptide binding]; other site 652103012648 conserved gate region; other site 652103012649 putative PBP binding loops; other site 652103012650 ABC-ATPase subunit interface; other site 652103012651 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 652103012652 dimer interface [polypeptide binding]; other site 652103012653 conserved gate region; other site 652103012654 putative PBP binding loops; other site 652103012655 ABC-ATPase subunit interface; other site 652103012656 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 652103012657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103012658 Walker A/P-loop; other site 652103012659 ATP binding site [chemical binding]; other site 652103012660 Q-loop/lid; other site 652103012661 ABC transporter signature motif; other site 652103012662 Walker B; other site 652103012663 D-loop; other site 652103012664 H-loop/switch region; other site 652103012665 TOBE domain; Region: TOBE_2; pfam08402 652103012666 Predicted transcriptional regulators [Transcription]; Region: COG1378 652103012667 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 652103012668 putative Zn2+ binding site [ion binding]; other site 652103012669 putative DNA binding site [nucleotide binding]; other site 652103012670 dimerization interface [polypeptide binding]; other site 652103012671 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103012672 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 652103012673 dimer interface [polypeptide binding]; other site 652103012674 conserved gate region; other site 652103012675 putative PBP binding loops; other site 652103012676 ABC-ATPase subunit interface; other site 652103012677 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103012678 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 652103012679 Walker A/P-loop; other site 652103012680 ATP binding site [chemical binding]; other site 652103012681 Q-loop/lid; other site 652103012682 ABC transporter signature motif; other site 652103012683 Walker B; other site 652103012684 D-loop; other site 652103012685 H-loop/switch region; other site 652103012686 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103012687 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 652103012688 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 652103012689 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103012690 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 652103012691 putative active site [active] 652103012692 catalytic triad [active] 652103012693 putative dimer interface [polypeptide binding]; other site 652103012694 PAS domain; Region: PAS; smart00091 652103012695 PAS fold; Region: PAS_7; pfam12860 652103012696 PAS fold; Region: PAS_4; pfam08448 652103012697 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 652103012698 putative active site [active] 652103012699 heme pocket [chemical binding]; other site 652103012700 PAS fold; Region: PAS_4; pfam08448 652103012701 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103012702 metal binding site [ion binding]; metal-binding site 652103012703 active site 652103012704 I-site; other site 652103012705 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 652103012706 Predicted dehydrogenase [General function prediction only]; Region: COG0579 652103012707 hydroxyglutarate oxidase; Provisional; Region: PRK11728 652103012708 Uncharacterized small protein [Function unknown]; Region: COG5570 652103012709 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 652103012710 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103012711 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103012712 metal binding site [ion binding]; metal-binding site 652103012713 active site 652103012714 I-site; other site 652103012715 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 652103012716 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 652103012717 ATP-grasp domain; Region: ATP-grasp; pfam02222 652103012718 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 652103012719 Cupin domain; Region: Cupin_2; cl17218 652103012720 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 652103012721 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103012722 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 652103012723 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 652103012724 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 652103012725 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 652103012726 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 652103012727 ligand binding site [chemical binding]; other site 652103012728 homodimer interface [polypeptide binding]; other site 652103012729 NAD(P) binding site [chemical binding]; other site 652103012730 trimer interface B [polypeptide binding]; other site 652103012731 trimer interface A [polypeptide binding]; other site 652103012732 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 652103012733 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 652103012734 putative addiction module antidote; Region: doc_partner; TIGR02609 652103012735 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 652103012736 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 652103012737 active site 652103012738 Zn binding site [ion binding]; other site 652103012739 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 652103012740 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 652103012741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012742 active site 652103012743 phosphorylation site [posttranslational modification] 652103012744 intermolecular recognition site; other site 652103012745 dimerization interface [polypeptide binding]; other site 652103012746 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 652103012747 Walker A motif; other site 652103012748 ATP binding site [chemical binding]; other site 652103012749 Walker B motif; other site 652103012750 arginine finger; other site 652103012751 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 652103012752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 652103012753 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 652103012754 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103012755 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103012756 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 652103012757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 652103012758 hypothetical protein; Provisional; Region: PRK13694 652103012759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 652103012760 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 652103012761 pyruvate kinase; Provisional; Region: PRK06247 652103012762 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 652103012763 domain interfaces; other site 652103012764 active site 652103012765 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 652103012766 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 652103012767 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 652103012768 binding surface 652103012769 TPR repeat; Region: TPR_11; pfam13414 652103012770 TPR motif; other site 652103012771 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 652103012772 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 652103012773 active site 652103012774 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 652103012775 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 652103012776 motif II; other site 652103012777 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 652103012778 putative deacylase active site [active] 652103012779 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 652103012780 DctM-like transporters; Region: DctM; pfam06808 652103012781 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 652103012782 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103012783 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103012784 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103012785 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012786 dimer interface [polypeptide binding]; other site 652103012787 putative CheW interface [polypeptide binding]; other site 652103012788 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 652103012789 PAS fold; Region: PAS_3; pfam08447 652103012790 putative active site [active] 652103012791 heme pocket [chemical binding]; other site 652103012792 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 652103012793 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 652103012794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012795 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 652103012796 NAD(P) binding site [chemical binding]; other site 652103012797 active site 652103012798 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 652103012799 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 652103012800 Patatin phospholipase; Region: DUF3734; pfam12536 652103012801 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 652103012802 glutamine synthetase; Region: PLN02284 652103012803 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 652103012804 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 652103012805 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 652103012806 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 652103012807 glutaminase; Provisional; Region: PRK00971 652103012808 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 652103012809 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 652103012810 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 652103012811 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 652103012812 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 652103012813 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 652103012814 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 652103012815 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 652103012816 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 652103012817 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 652103012818 active site 652103012819 SAM binding site [chemical binding]; other site 652103012820 homodimer interface [polypeptide binding]; other site 652103012821 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 652103012822 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 652103012823 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 652103012824 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 652103012825 dimer interface [polypeptide binding]; other site 652103012826 conserved gate region; other site 652103012827 putative PBP binding loops; other site 652103012828 ABC-ATPase subunit interface; other site 652103012829 sulfate transport protein; Provisional; Region: cysT; CHL00187 652103012830 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 652103012831 dimer interface [polypeptide binding]; other site 652103012832 conserved gate region; other site 652103012833 putative PBP binding loops; other site 652103012834 ABC-ATPase subunit interface; other site 652103012835 malate synthase G; Provisional; Region: PRK02999 652103012836 active site 652103012837 CsbD-like; Region: CsbD; cl17424 652103012838 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 652103012839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103012840 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103012841 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 652103012842 two-component response regulator; Provisional; Region: PRK09191 652103012843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012844 active site 652103012845 phosphorylation site [posttranslational modification] 652103012846 intermolecular recognition site; other site 652103012847 dimerization interface [polypeptide binding]; other site 652103012848 RNA polymerase sigma factor; Provisional; Region: PRK12540 652103012849 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103012850 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 652103012851 DNA binding residues [nucleotide binding] 652103012852 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 652103012853 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103012854 HWE histidine kinase; Region: HWE_HK; pfam07536 652103012855 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 652103012856 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 652103012857 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 652103012858 putative [4Fe-4S] binding site [ion binding]; other site 652103012859 putative molybdopterin cofactor binding site [chemical binding]; other site 652103012860 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 652103012861 putative molybdopterin cofactor binding site; other site 652103012862 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 652103012863 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103012864 ligand binding site [chemical binding]; other site 652103012865 flexible hinge region; other site 652103012866 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 652103012867 putative switch regulator; other site 652103012868 non-specific DNA interactions [nucleotide binding]; other site 652103012869 DNA binding site [nucleotide binding] 652103012870 sequence specific DNA binding site [nucleotide binding]; other site 652103012871 putative cAMP binding site [chemical binding]; other site 652103012872 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 652103012873 Cytochrome c; Region: Cytochrom_C; pfam00034 652103012874 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 652103012875 mce related protein; Region: MCE; pfam02470 652103012876 Protein of unknown function (DUF330); Region: DUF330; cl01135 652103012877 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 652103012878 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 652103012879 Walker A/P-loop; other site 652103012880 ATP binding site [chemical binding]; other site 652103012881 Q-loop/lid; other site 652103012882 ABC transporter signature motif; other site 652103012883 Walker B; other site 652103012884 D-loop; other site 652103012885 H-loop/switch region; other site 652103012886 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 652103012887 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 652103012888 Permease; Region: Permease; pfam02405 652103012889 IncA protein; Region: IncA; pfam04156 652103012890 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 652103012891 CoA binding domain; Region: CoA_binding_2; pfam13380 652103012892 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 652103012893 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 652103012894 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 652103012895 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 652103012896 FOG: CBS domain [General function prediction only]; Region: COG0517 652103012897 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 652103012898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 652103012899 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 652103012900 substrate binding site [chemical binding]; other site 652103012901 AAA domain; Region: AAA_33; pfam13671 652103012902 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 652103012903 active site 652103012904 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 652103012905 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 652103012906 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 652103012907 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 652103012908 Ligand Binding Site [chemical binding]; other site 652103012909 FOG: CBS domain [General function prediction only]; Region: COG0517 652103012910 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 652103012911 BON domain; Region: BON; pfam04972 652103012912 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 652103012913 putative active site [active] 652103012914 heme pocket [chemical binding]; other site 652103012915 PAS domain S-box; Region: sensory_box; TIGR00229 652103012916 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 652103012917 putative active site [active] 652103012918 heme pocket [chemical binding]; other site 652103012919 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 652103012920 dimer interface [polypeptide binding]; other site 652103012921 phosphorylation site [posttranslational modification] 652103012922 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 652103012923 ATP binding site [chemical binding]; other site 652103012924 Mg2+ binding site [ion binding]; other site 652103012925 G-X-G motif; other site 652103012926 response regulator FixJ; Provisional; Region: fixJ; PRK09390 652103012927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012928 active site 652103012929 phosphorylation site [posttranslational modification] 652103012930 intermolecular recognition site; other site 652103012931 dimerization interface [polypeptide binding]; other site 652103012932 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 652103012933 DNA binding residues [nucleotide binding] 652103012934 dimerization interface [polypeptide binding]; other site 652103012935 Response regulator receiver domain; Region: Response_reg; pfam00072 652103012936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012937 active site 652103012938 phosphorylation site [posttranslational modification] 652103012939 intermolecular recognition site; other site 652103012940 dimerization interface [polypeptide binding]; other site 652103012941 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 652103012942 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 652103012943 ligand binding site [chemical binding]; other site 652103012944 flexible hinge region; other site 652103012945 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 652103012946 putative switch regulator; other site 652103012947 non-specific DNA interactions [nucleotide binding]; other site 652103012948 DNA binding site [nucleotide binding] 652103012949 sequence specific DNA binding site [nucleotide binding]; other site 652103012950 putative cAMP binding site [chemical binding]; other site 652103012951 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 652103012952 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 652103012953 homodimer interface [polypeptide binding]; other site 652103012954 substrate-cofactor binding pocket; other site 652103012955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103012956 catalytic residue [active] 652103012957 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 652103012958 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103012959 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 652103012960 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103012961 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 652103012962 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 652103012963 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 652103012964 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 652103012965 4Fe-4S binding domain; Region: Fer4; pfam00037 652103012966 4Fe-4S binding domain; Region: Fer4; pfam00037 652103012967 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 652103012968 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 652103012969 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 652103012970 catalytic loop [active] 652103012971 iron binding site [ion binding]; other site 652103012972 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 652103012973 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 652103012974 [4Fe-4S] binding site [ion binding]; other site 652103012975 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 652103012976 SLBB domain; Region: SLBB; pfam10531 652103012977 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 652103012978 NADH dehydrogenase subunit E; Validated; Region: PRK07539 652103012979 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 652103012980 putative dimer interface [polypeptide binding]; other site 652103012981 [2Fe-2S] cluster binding site [ion binding]; other site 652103012982 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 652103012983 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 652103012984 NADH dehydrogenase subunit D; Validated; Region: PRK06075 652103012985 NADH dehydrogenase subunit B; Validated; Region: PRK06411 652103012986 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 652103012987 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 652103012988 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 652103012989 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103012990 Walker A/P-loop; other site 652103012991 ATP binding site [chemical binding]; other site 652103012992 Q-loop/lid; other site 652103012993 ABC transporter signature motif; other site 652103012994 Walker B; other site 652103012995 D-loop; other site 652103012996 H-loop/switch region; other site 652103012997 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 652103012998 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 652103012999 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 652103013000 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 652103013001 acyl-activating enzyme (AAE) consensus motif; other site 652103013002 putative AMP binding site [chemical binding]; other site 652103013003 putative active site [active] 652103013004 putative CoA binding site [chemical binding]; other site 652103013005 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 652103013006 catalytic triad [active] 652103013007 dimer interface [polypeptide binding]; other site 652103013008 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 652103013009 RNA/DNA hybrid binding site [nucleotide binding]; other site 652103013010 active site 652103013011 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 652103013012 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 652103013013 putative active site [active] 652103013014 putative substrate binding site [chemical binding]; other site 652103013015 ATP binding site [chemical binding]; other site 652103013016 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 652103013017 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 652103013018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 652103013019 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 652103013020 ATP binding site [chemical binding]; other site 652103013021 Mg2+ binding site [ion binding]; other site 652103013022 G-X-G motif; other site 652103013023 prevent-host-death family protein; Region: phd_fam; TIGR01552 652103013024 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 652103013025 oligomeric interface; other site 652103013026 putative active site [active] 652103013027 homodimer interface [polypeptide binding]; other site 652103013028 Sensors of blue-light using FAD; Region: BLUF; pfam04940 652103013029 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103013030 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103013031 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 652103013032 dimerization interface [polypeptide binding]; other site 652103013033 Uncharacterized conserved protein [Function unknown]; Region: COG2353 652103013034 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 652103013035 putative FMN binding site [chemical binding]; other site 652103013036 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 652103013037 S-adenosylmethionine binding site [chemical binding]; other site 652103013038 HipA-like N-terminal domain; Region: HipA_N; pfam07805 652103013039 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 652103013040 active site 652103013041 catalytic residues [active] 652103013042 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 652103013043 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103013044 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103013045 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 652103013046 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 652103013047 GDP-binding site [chemical binding]; other site 652103013048 ACT binding site; other site 652103013049 IMP binding site; other site 652103013050 PilZ domain; Region: PilZ; pfam07238 652103013051 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 652103013052 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 652103013053 active site 652103013054 catalytic tetrad [active] 652103013055 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 652103013056 putative deacylase active site [active] 652103013057 EamA-like transporter family; Region: EamA; pfam00892 652103013058 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 652103013059 EamA-like transporter family; Region: EamA; pfam00892 652103013060 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 652103013061 EamA-like transporter family; Region: EamA; pfam00892 652103013062 EamA-like transporter family; Region: EamA; pfam00892 652103013063 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 652103013064 HAMP domain; Region: HAMP; pfam00672 652103013065 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013066 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013067 Cache domain; Region: Cache_1; pfam02743 652103013068 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 652103013069 dimerization interface [polypeptide binding]; other site 652103013070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013071 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103013072 dimer interface [polypeptide binding]; other site 652103013073 putative CheW interface [polypeptide binding]; other site 652103013074 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103013075 diiron binding motif [ion binding]; other site 652103013076 Uncharacterized conserved protein [Function unknown]; Region: COG1633 652103013077 CCC1-related family of proteins; Region: CCC1_like; cl00278 652103013078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 652103013079 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 652103013080 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 652103013081 dimerization interface [polypeptide binding]; other site 652103013082 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013083 dimer interface [polypeptide binding]; other site 652103013084 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103013085 putative CheW interface [polypeptide binding]; other site 652103013086 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 652103013087 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 652103013088 dimerization interface [polypeptide binding]; other site 652103013089 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103013090 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013091 dimer interface [polypeptide binding]; other site 652103013092 putative CheW interface [polypeptide binding]; other site 652103013093 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 652103013094 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 652103013095 ligand binding site [chemical binding]; other site 652103013096 NAD binding site [chemical binding]; other site 652103013097 dimerization interface [polypeptide binding]; other site 652103013098 catalytic site [active] 652103013099 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 652103013100 putative L-serine binding site [chemical binding]; other site 652103013101 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 652103013102 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103013103 catalytic residue [active] 652103013104 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 652103013105 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103013106 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013107 dimer interface [polypeptide binding]; other site 652103013108 putative CheW interface [polypeptide binding]; other site 652103013109 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 652103013110 PAS fold; Region: PAS_3; pfam08447 652103013111 putative active site [active] 652103013112 heme pocket [chemical binding]; other site 652103013113 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 652103013114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103013115 Coenzyme A binding pocket [chemical binding]; other site 652103013116 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103013117 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 652103013118 putative C-terminal domain interface [polypeptide binding]; other site 652103013119 putative GSH binding site (G-site) [chemical binding]; other site 652103013120 putative dimer interface [polypeptide binding]; other site 652103013121 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103013122 N-terminal domain interface [polypeptide binding]; other site 652103013123 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103013124 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103013125 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103013126 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103013127 putative substrate translocation pore; other site 652103013128 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 652103013129 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 652103013130 active site 652103013131 substrate binding site [chemical binding]; other site 652103013132 metal binding site [ion binding]; metal-binding site 652103013133 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 652103013134 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 652103013135 phosphate binding site [ion binding]; other site 652103013136 enoyl-CoA hydratase; Provisional; Region: PRK09245 652103013137 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 652103013138 substrate binding site [chemical binding]; other site 652103013139 oxyanion hole (OAH) forming residues; other site 652103013140 trimer interface [polypeptide binding]; other site 652103013141 Predicted membrane protein [Function unknown]; Region: COG2860 652103013142 UPF0126 domain; Region: UPF0126; pfam03458 652103013143 UPF0126 domain; Region: UPF0126; pfam03458 652103013144 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 652103013145 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 652103013146 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 652103013147 shikimate binding site; other site 652103013148 NAD(P) binding site [chemical binding]; other site 652103013149 putative transporter; Provisional; Region: PRK11660 652103013150 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 652103013151 Sulfate transporter family; Region: Sulfate_transp; pfam00916 652103013152 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 652103013153 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 652103013154 sequence-specific DNA binding site [nucleotide binding]; other site 652103013155 salt bridge; other site 652103013156 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 652103013157 elongation factor G; Reviewed; Region: PRK12740 652103013158 G1 box; other site 652103013159 putative GEF interaction site [polypeptide binding]; other site 652103013160 GTP/Mg2+ binding site [chemical binding]; other site 652103013161 Switch I region; other site 652103013162 G2 box; other site 652103013163 G3 box; other site 652103013164 Switch II region; other site 652103013165 G4 box; other site 652103013166 G5 box; other site 652103013167 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 652103013168 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 652103013169 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 652103013170 Protein of unknown function (DUF992); Region: DUF992; pfam06186 652103013171 Protein of unknown function (DUF992); Region: DUF992; pfam06186 652103013172 aspartate aminotransferase; Provisional; Region: PRK05764 652103013173 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 652103013174 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103013175 homodimer interface [polypeptide binding]; other site 652103013176 catalytic residue [active] 652103013177 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103013178 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 652103013179 putative C-terminal domain interface [polypeptide binding]; other site 652103013180 putative GSH binding site (G-site) [chemical binding]; other site 652103013181 putative dimer interface [polypeptide binding]; other site 652103013182 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 652103013183 dimer interface [polypeptide binding]; other site 652103013184 N-terminal domain interface [polypeptide binding]; other site 652103013185 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 652103013186 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 652103013187 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 652103013188 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 652103013189 putative acyl-acceptor binding pocket; other site 652103013190 replicative DNA helicase; Provisional; Region: PRK05973 652103013191 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 652103013192 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 652103013193 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 652103013194 active site 652103013195 catalytic tetrad [active] 652103013196 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 652103013197 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 652103013198 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 652103013199 motif II; other site 652103013200 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103013201 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103013202 enoyl-CoA hydratase; Provisional; Region: PRK05980 652103013203 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 652103013204 substrate binding site [chemical binding]; other site 652103013205 oxyanion hole (OAH) forming residues; other site 652103013206 trimer interface [polypeptide binding]; other site 652103013207 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 652103013208 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103013209 putative C-terminal domain interface [polypeptide binding]; other site 652103013210 putative GSH binding site (G-site) [chemical binding]; other site 652103013211 putative dimer interface [polypeptide binding]; other site 652103013212 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 652103013213 putative N-terminal domain interface [polypeptide binding]; other site 652103013214 putative dimer interface [polypeptide binding]; other site 652103013215 putative substrate binding pocket (H-site) [chemical binding]; other site 652103013216 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 652103013217 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 652103013218 SCP-2 sterol transfer family; Region: SCP2; pfam02036 652103013219 excinuclease ABC subunit B; Provisional; Region: PRK05298 652103013220 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 652103013221 ATP binding site [chemical binding]; other site 652103013222 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 652103013223 nucleotide binding region [chemical binding]; other site 652103013224 ATP-binding site [chemical binding]; other site 652103013225 Ultra-violet resistance protein B; Region: UvrB; pfam12344 652103013226 UvrB/uvrC motif; Region: UVR; pfam02151 652103013227 MT-A70; Region: MT-A70; cl01947 652103013228 Tail-tube assembly protein; Region: T4_tail_cap; cl17863 652103013229 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 652103013230 oligomeric interface; other site 652103013231 putative active site [active] 652103013232 homodimer interface [polypeptide binding]; other site 652103013233 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 652103013234 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 652103013235 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 652103013236 dimer interface [polypeptide binding]; other site 652103013237 active site 652103013238 SnoaL-like domain; Region: SnoaL_2; pfam12680 652103013239 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 652103013240 putative active site [active] 652103013241 putative catalytic site [active] 652103013242 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 652103013243 putative active site [active] 652103013244 putative catalytic site [active] 652103013245 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 652103013246 GTP-binding protein YchF; Reviewed; Region: PRK09601 652103013247 YchF GTPase; Region: YchF; cd01900 652103013248 G1 box; other site 652103013249 GTP/Mg2+ binding site [chemical binding]; other site 652103013250 Switch I region; other site 652103013251 G2 box; other site 652103013252 Switch II region; other site 652103013253 G3 box; other site 652103013254 G4 box; other site 652103013255 G5 box; other site 652103013256 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 652103013257 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 652103013258 putative active site [active] 652103013259 catalytic residue [active] 652103013260 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 652103013261 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 652103013262 5S rRNA interface [nucleotide binding]; other site 652103013263 CTC domain interface [polypeptide binding]; other site 652103013264 L16 interface [polypeptide binding]; other site 652103013265 Membrane fusogenic activity; Region: BMFP; pfam04380 652103013266 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 652103013267 Uncharacterized conserved protein [Function unknown]; Region: COG1565 652103013268 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 652103013269 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 652103013270 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 652103013271 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 652103013272 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103013273 active site 652103013274 riboflavin synthase subunit beta; Provisional; Region: PRK12419 652103013275 active site 652103013276 homopentamer interface [polypeptide binding]; other site 652103013277 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 652103013278 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 652103013279 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 652103013280 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103013281 HAMP domain; Region: HAMP; pfam00672 652103013282 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 652103013283 dimer interface [polypeptide binding]; other site 652103013284 phosphorylation site [posttranslational modification] 652103013285 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 652103013286 ATP binding site [chemical binding]; other site 652103013287 Mg2+ binding site [ion binding]; other site 652103013288 G-X-G motif; other site 652103013289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013290 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 652103013291 active site 652103013292 phosphorylation site [posttranslational modification] 652103013293 intermolecular recognition site; other site 652103013294 dimerization interface [polypeptide binding]; other site 652103013295 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 652103013296 DNA binding site [nucleotide binding] 652103013297 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103013298 MarR family; Region: MarR_2; pfam12802 652103013299 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 652103013300 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 652103013301 homodimer interface [polypeptide binding]; other site 652103013302 substrate-cofactor binding pocket; other site 652103013303 catalytic residue [active] 652103013304 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 652103013305 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 652103013306 ATP binding site [chemical binding]; other site 652103013307 Mg2+ binding site [ion binding]; other site 652103013308 G-X-G motif; other site 652103013309 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 652103013310 ATP binding site [chemical binding]; other site 652103013311 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 652103013312 hypothetical protein; Provisional; Region: PRK09256 652103013313 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 652103013314 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 652103013315 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 652103013316 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 652103013317 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 652103013318 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 652103013319 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 652103013320 lipoprotein signal peptidase; Provisional; Region: PRK14796 652103013321 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 652103013322 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103013323 active site 652103013324 HIGH motif; other site 652103013325 nucleotide binding site [chemical binding]; other site 652103013326 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 652103013327 active site 652103013328 KMSKS motif; other site 652103013329 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 652103013330 tRNA binding surface [nucleotide binding]; other site 652103013331 anticodon binding site; other site 652103013332 maltose O-acetyltransferase; Provisional; Region: PRK10092 652103013333 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 652103013334 active site 652103013335 substrate binding site [chemical binding]; other site 652103013336 trimer interface [polypeptide binding]; other site 652103013337 CoA binding site [chemical binding]; other site 652103013338 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 652103013339 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 652103013340 active site 652103013341 Riboflavin kinase; Region: Flavokinase; smart00904 652103013342 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 652103013343 B1 nucleotide binding pocket [chemical binding]; other site 652103013344 B2 nucleotide binding pocket [chemical binding]; other site 652103013345 CAS motifs; other site 652103013346 active site 652103013347 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 652103013348 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 652103013349 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 652103013350 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 652103013351 Predicted acetyltransferase [General function prediction only]; Region: COG3153 652103013352 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 652103013353 Mechanosensitive ion channel; Region: MS_channel; pfam00924 652103013354 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_21; cd04680 652103013355 nudix motif; other site 652103013356 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 652103013357 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 652103013358 putative active site [active] 652103013359 putative metal binding site [ion binding]; other site 652103013360 isocitrate lyase; Provisional; Region: PRK15063 652103013361 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 652103013362 tetramer interface [polypeptide binding]; other site 652103013363 active site 652103013364 Mg2+/Mn2+ binding site [ion binding]; other site 652103013365 isocitrate lyase; Region: PLN02892 652103013366 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103013367 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 652103013368 non-specific DNA binding site [nucleotide binding]; other site 652103013369 salt bridge; other site 652103013370 sequence-specific DNA binding site [nucleotide binding]; other site 652103013371 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 652103013372 Domain of unknown function (DUF955); Region: DUF955; pfam06114 652103013373 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 652103013374 lytic murein transglycosylase; Region: MltB_2; TIGR02283 652103013375 murein hydrolase B; Provisional; Region: PRK10760; cl17906 652103013376 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 652103013377 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103013378 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 652103013379 putative ligand binding site [chemical binding]; other site 652103013380 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103013381 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 652103013382 Walker A/P-loop; other site 652103013383 ATP binding site [chemical binding]; other site 652103013384 Q-loop/lid; other site 652103013385 ABC transporter signature motif; other site 652103013386 Walker B; other site 652103013387 D-loop; other site 652103013388 H-loop/switch region; other site 652103013389 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103013390 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 652103013391 Walker A/P-loop; other site 652103013392 ATP binding site [chemical binding]; other site 652103013393 Q-loop/lid; other site 652103013394 ABC transporter signature motif; other site 652103013395 Walker B; other site 652103013396 D-loop; other site 652103013397 H-loop/switch region; other site 652103013398 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103013399 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 652103013400 TM-ABC transporter signature motif; other site 652103013401 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 652103013402 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 652103013403 TM-ABC transporter signature motif; other site 652103013404 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 652103013405 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 652103013406 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 652103013407 FMN binding site [chemical binding]; other site 652103013408 active site 652103013409 substrate binding site [chemical binding]; other site 652103013410 catalytic residue [active] 652103013411 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 652103013412 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 652103013413 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 652103013414 dimer interface [polypeptide binding]; other site 652103013415 conserved gate region; other site 652103013416 putative PBP binding loops; other site 652103013417 ABC-ATPase subunit interface; other site 652103013418 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 652103013419 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 652103013420 dimer interface [polypeptide binding]; other site 652103013421 conserved gate region; other site 652103013422 putative PBP binding loops; other site 652103013423 ABC-ATPase subunit interface; other site 652103013424 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 652103013425 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 652103013426 Walker A/P-loop; other site 652103013427 ATP binding site [chemical binding]; other site 652103013428 Q-loop/lid; other site 652103013429 ABC transporter signature motif; other site 652103013430 Walker B; other site 652103013431 D-loop; other site 652103013432 H-loop/switch region; other site 652103013433 TOBE domain; Region: TOBE; pfam03459 652103013434 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 652103013435 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 652103013436 Walker A/P-loop; other site 652103013437 ATP binding site [chemical binding]; other site 652103013438 Q-loop/lid; other site 652103013439 ABC transporter signature motif; other site 652103013440 Walker B; other site 652103013441 D-loop; other site 652103013442 H-loop/switch region; other site 652103013443 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 652103013444 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 652103013445 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 652103013446 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 652103013447 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 652103013448 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103013449 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 652103013450 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103013451 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103013452 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103013453 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103013454 PAS fold; Region: PAS_4; pfam08448 652103013455 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 652103013456 dimer interface [polypeptide binding]; other site 652103013457 phosphorylation site [posttranslational modification] 652103013458 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 652103013459 ATP binding site [chemical binding]; other site 652103013460 Mg2+ binding site [ion binding]; other site 652103013461 G-X-G motif; other site 652103013462 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013463 active site 652103013464 phosphorylation site [posttranslational modification] 652103013465 intermolecular recognition site; other site 652103013466 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 652103013467 putative binding surface; other site 652103013468 active site 652103013469 CsbD-like; Region: CsbD; pfam05532 652103013470 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 652103013471 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 652103013472 SlyX; Region: SlyX; pfam04102 652103013473 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103013474 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103013475 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103013476 acyl-activating enzyme (AAE) consensus motif; other site 652103013477 acyl-activating enzyme (AAE) consensus motif; other site 652103013478 putative AMP binding site [chemical binding]; other site 652103013479 putative active site [active] 652103013480 putative CoA binding site [chemical binding]; other site 652103013481 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103013482 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 652103013483 ligand binding site [chemical binding]; other site 652103013484 flexible hinge region; other site 652103013485 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 652103013486 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 652103013487 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 652103013488 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 652103013489 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 652103013490 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103013491 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 652103013492 putative C-terminal domain interface [polypeptide binding]; other site 652103013493 putative GSH binding site (G-site) [chemical binding]; other site 652103013494 putative dimer interface [polypeptide binding]; other site 652103013495 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 652103013496 N-terminal domain interface [polypeptide binding]; other site 652103013497 dimer interface [polypeptide binding]; other site 652103013498 putative substrate binding pocket (H-site) [chemical binding]; other site 652103013499 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 652103013500 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 652103013501 DNA binding site [nucleotide binding] 652103013502 active site 652103013503 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 652103013504 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 652103013505 Peptidase family M23; Region: Peptidase_M23; pfam01551 652103013506 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 652103013507 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 652103013508 Uncharacterized conserved protein [Function unknown]; Region: COG3391 652103013509 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 652103013510 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 652103013511 Clp amino terminal domain; Region: Clp_N; pfam02861 652103013512 Clp amino terminal domain; Region: Clp_N; pfam02861 652103013513 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 652103013514 Walker A motif; other site 652103013515 ATP binding site [chemical binding]; other site 652103013516 Walker B motif; other site 652103013517 arginine finger; other site 652103013518 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 652103013519 Walker A motif; other site 652103013520 ATP binding site [chemical binding]; other site 652103013521 Walker B motif; other site 652103013522 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 652103013523 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 652103013524 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 652103013525 MOSC domain; Region: MOSC; pfam03473 652103013526 TIGR02594 family protein; Region: TIGR02594 652103013527 Methyltransferase domain; Region: Methyltransf_23; pfam13489 652103013528 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 652103013529 S-adenosylmethionine binding site [chemical binding]; other site 652103013530 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 652103013531 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 652103013532 hypothetical protein; Provisional; Region: PRK06034 652103013533 Chorismate mutase type II; Region: CM_2; pfam01817 652103013534 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 652103013535 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 652103013536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103013537 homodimer interface [polypeptide binding]; other site 652103013538 catalytic residue [active] 652103013539 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 652103013540 prephenate dehydrogenase; Validated; Region: PRK08507 652103013541 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 652103013542 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 652103013543 Cl binding site [ion binding]; other site 652103013544 oligomer interface [polypeptide binding]; other site 652103013545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103013546 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103013547 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 652103013548 putative acyl-CoA synthetase; Provisional; Region: PRK06018 652103013549 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 652103013550 dimer interface [polypeptide binding]; other site 652103013551 acyl-activating enzyme (AAE) consensus motif; other site 652103013552 putative active site [active] 652103013553 AMP binding site [chemical binding]; other site 652103013554 putative CoA binding site [chemical binding]; other site 652103013555 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 652103013556 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 652103013557 Heavy-metal resistance; Region: Metal_resist; pfam13801 652103013558 RNA polymerase sigma factor; Reviewed; Region: PRK05602 652103013559 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103013560 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 652103013561 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 652103013562 dimerization interface [polypeptide binding]; other site 652103013563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013564 dimer interface [polypeptide binding]; other site 652103013565 putative CheW interface [polypeptide binding]; other site 652103013566 tyrosine decarboxylase; Region: PLN02880 652103013567 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 652103013568 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103013569 catalytic residue [active] 652103013570 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 652103013571 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103013572 putative active site [active] 652103013573 metal binding site [ion binding]; metal-binding site 652103013574 homodimer binding site [polypeptide binding]; other site 652103013575 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 652103013576 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 652103013577 active site 652103013578 catalytic residue [active] 652103013579 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 652103013580 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 652103013581 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 652103013582 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 652103013583 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 652103013584 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103013585 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013586 dimer interface [polypeptide binding]; other site 652103013587 putative CheW interface [polypeptide binding]; other site 652103013588 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 652103013589 PAS fold; Region: PAS_3; pfam08447 652103013590 putative active site [active] 652103013591 heme pocket [chemical binding]; other site 652103013592 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013593 dimer interface [polypeptide binding]; other site 652103013594 putative CheW interface [polypeptide binding]; other site 652103013595 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 652103013596 PAS fold; Region: PAS_3; pfam08447 652103013597 putative active site [active] 652103013598 heme pocket [chemical binding]; other site 652103013599 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 652103013600 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 652103013601 minor groove reading motif; other site 652103013602 helix-hairpin-helix signature motif; other site 652103013603 substrate binding pocket [chemical binding]; other site 652103013604 active site 652103013605 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 652103013606 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 652103013607 DNA binding and oxoG recognition site [nucleotide binding] 652103013608 Protein of unknown function (DUF721); Region: DUF721; cl02324 652103013609 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 652103013610 Thioredoxin; Region: Thioredoxin_4; pfam13462 652103013611 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 652103013612 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103013613 salt bridge; other site 652103013614 non-specific DNA binding site [nucleotide binding]; other site 652103013615 sequence-specific DNA binding site [nucleotide binding]; other site 652103013616 Domain of unknown function (DUF955); Region: DUF955; pfam06114 652103013617 Beta protein; Region: Beta_protein; pfam14350 652103013618 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 652103013619 AAA domain; Region: AAA_23; pfam13476 652103013620 Walker A/P-loop; other site 652103013621 ATP binding site [chemical binding]; other site 652103013622 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 652103013623 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 652103013624 ABC transporter signature motif; other site 652103013625 Walker B; other site 652103013626 D-loop; other site 652103013627 H-loop/switch region; other site 652103013628 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 652103013629 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 652103013630 Peptidase family M48; Region: Peptidase_M48; cl12018 652103013631 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 652103013632 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103013633 active site 652103013634 anthranilate synthase; Provisional; Region: PRK13566 652103013635 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 652103013636 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 652103013637 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 652103013638 glutamine binding [chemical binding]; other site 652103013639 catalytic triad [active] 652103013640 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]; Region: COG1724 652103013641 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 652103013642 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 652103013643 S-adenosylmethionine binding site [chemical binding]; other site 652103013644 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 652103013645 ABC1 family; Region: ABC1; pfam03109 652103013646 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 652103013647 PhnA protein; Region: PhnA; pfam03831 652103013648 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 652103013649 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 652103013650 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 652103013651 acyl-activating enzyme (AAE) consensus motif; other site 652103013652 putative AMP binding site [chemical binding]; other site 652103013653 putative active site [active] 652103013654 putative CoA binding site [chemical binding]; other site 652103013655 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 652103013656 TPR repeat; Region: TPR_11; pfam13414 652103013657 TPR motif; other site 652103013658 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103013659 classical (c) SDRs; Region: SDR_c; cd05233 652103013660 NAD(P) binding site [chemical binding]; other site 652103013661 active site 652103013662 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 652103013663 Radical SAM superfamily; Region: Radical_SAM; pfam04055 652103013664 FeS/SAM binding site; other site 652103013665 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 652103013666 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 652103013667 DctM-like transporters; Region: DctM; pfam06808 652103013668 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 652103013669 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 652103013670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013671 active site 652103013672 phosphorylation site [posttranslational modification] 652103013673 intermolecular recognition site; other site 652103013674 PAS fold; Region: PAS_4; pfam08448 652103013675 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103013676 HWE histidine kinase; Region: HWE_HK; smart00911 652103013677 PhoD-like phosphatase; Region: PhoD; pfam09423 652103013678 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 652103013679 putative active site [active] 652103013680 putative metal binding site [ion binding]; other site 652103013681 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 652103013682 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 652103013683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 652103013684 active site 652103013685 phosphorylation site [posttranslational modification] 652103013686 intermolecular recognition site; other site 652103013687 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 652103013688 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 652103013689 putative active site [active] 652103013690 putative CoA binding site [chemical binding]; other site 652103013691 nudix motif; other site 652103013692 metal binding site [ion binding]; metal-binding site 652103013693 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103013694 CoenzymeA binding site [chemical binding]; other site 652103013695 subunit interaction site [polypeptide binding]; other site 652103013696 PHB binding site; other site 652103013697 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 652103013698 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 652103013699 motif II; other site 652103013700 Response regulator receiver domain; Region: Response_reg; pfam00072 652103013701 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013702 active site 652103013703 phosphorylation site [posttranslational modification] 652103013704 intermolecular recognition site; other site 652103013705 dimerization interface [polypeptide binding]; other site 652103013706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103013707 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 652103013708 ATP binding site [chemical binding]; other site 652103013709 Mg2+ binding site [ion binding]; other site 652103013710 G-X-G motif; other site 652103013711 zinc-binding protein; Provisional; Region: PRK01343 652103013712 Maf-like protein; Region: Maf; pfam02545 652103013713 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 652103013714 active site 652103013715 dimer interface [polypeptide binding]; other site 652103013716 Predicted ATPase [General function prediction only]; Region: COG4637 652103013717 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103013718 Walker A/P-loop; other site 652103013719 ATP binding site [chemical binding]; other site 652103013720 Low molecular weight phosphatase family; Region: LMWPc; cd00115 652103013721 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 652103013722 active site 652103013723 hypothetical protein; Provisional; Region: PRK02853 652103013724 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 652103013725 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 652103013726 NAD binding site [chemical binding]; other site 652103013727 dimerization interface [polypeptide binding]; other site 652103013728 product binding site; other site 652103013729 substrate binding site [chemical binding]; other site 652103013730 zinc binding site [ion binding]; other site 652103013731 catalytic residues [active] 652103013732 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 652103013733 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 652103013734 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 652103013735 hinge; other site 652103013736 active site 652103013737 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 652103013738 SnoaL-like domain; Region: SnoaL_2; pfam12680 652103013739 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103013740 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103013741 active site 652103013742 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 652103013743 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 652103013744 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 652103013745 active site 652103013746 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 652103013747 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 652103013748 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 652103013749 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103013750 Catalytic site; other site 652103013751 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 652103013752 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103013753 CoenzymeA binding site [chemical binding]; other site 652103013754 subunit interaction site [polypeptide binding]; other site 652103013755 PHB binding site; other site 652103013756 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 652103013757 CoenzymeA binding site [chemical binding]; other site 652103013758 subunit interaction site [polypeptide binding]; other site 652103013759 PHB binding site; other site 652103013760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 652103013761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103013762 metal binding site [ion binding]; metal-binding site 652103013763 active site 652103013764 I-site; other site 652103013765 Acetokinase family; Region: Acetate_kinase; cl17229 652103013766 propionate/acetate kinase; Provisional; Region: PRK12379 652103013767 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 652103013768 (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 652103013769 dimer interaction site [polypeptide binding]; other site 652103013770 substrate-binding tunnel; other site 652103013771 active site 652103013772 catalytic site [active] 652103013773 substrate binding site [chemical binding]; other site 652103013774 phosphate acetyltransferase; Provisional; Region: PRK11890 652103013775 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 652103013776 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 652103013777 NAD binding site [chemical binding]; other site 652103013778 homotetramer interface [polypeptide binding]; other site 652103013779 homodimer interface [polypeptide binding]; other site 652103013780 substrate binding site [chemical binding]; other site 652103013781 active site 652103013782 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 652103013783 BA14K-like protein; Region: BA14K; pfam07886 652103013784 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 652103013785 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 652103013786 active site 652103013787 homotetramer interface [polypeptide binding]; other site 652103013788 Predicted membrane protein [Function unknown]; Region: COG4325 652103013789 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 652103013790 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 652103013791 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 652103013792 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103013793 protein binding site [polypeptide binding]; other site 652103013794 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103013795 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 652103013796 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 652103013797 Walker A/P-loop; other site 652103013798 ATP binding site [chemical binding]; other site 652103013799 Q-loop/lid; other site 652103013800 ABC transporter signature motif; other site 652103013801 Walker B; other site 652103013802 D-loop; other site 652103013803 H-loop/switch region; other site 652103013804 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 652103013805 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 652103013806 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 652103013807 TM-ABC transporter signature motif; other site 652103013808 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 652103013809 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 652103013810 TM-ABC transporter signature motif; other site 652103013811 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 652103013812 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 652103013813 putative ligand binding site [chemical binding]; other site 652103013814 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 652103013815 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 652103013816 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 652103013817 protein binding site [polypeptide binding]; other site 652103013818 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 652103013819 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 652103013820 NAD binding site [chemical binding]; other site 652103013821 homodimer interface [polypeptide binding]; other site 652103013822 active site 652103013823 substrate binding site [chemical binding]; other site 652103013824 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 652103013825 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 652103013826 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 652103013827 O-Antigen ligase; Region: Wzy_C; pfam04932 652103013828 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 652103013829 Chain length determinant protein; Region: Wzz; cl15801 652103013830 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 652103013831 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103013832 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 652103013833 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 652103013834 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 652103013835 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 652103013836 homoserine O-succinyltransferase; Provisional; Region: PRK05368 652103013837 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 652103013838 conserved cys residue [active] 652103013839 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 652103013840 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 652103013841 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 652103013842 oxidoreductase; Provisional; Region: PRK10015 652103013843 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 652103013844 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 652103013845 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 652103013846 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 652103013847 Ligand binding site [chemical binding]; other site 652103013848 Electron transfer flavoprotein domain; Region: ETF; pfam01012 652103013849 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 652103013850 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 652103013851 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 652103013852 active site 652103013853 catalytic residues [active] 652103013854 metal binding site [ion binding]; metal-binding site 652103013855 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 652103013856 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 652103013857 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103013858 catalytic residue [active] 652103013859 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 652103013860 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 652103013861 active site 652103013862 trimerization site [polypeptide binding]; other site 652103013863 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 652103013864 NifU-like domain; Region: NifU; pfam01106 652103013865 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 652103013866 NifQ; Region: NifQ; pfam04891 652103013867 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 652103013868 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 652103013869 Rop-like; Region: Rop-like; pfam05082 652103013870 probable nitrogen fixation protein; Region: TIGR02935 652103013871 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. The protein...; Region: NifX; cd00853 652103013872 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 652103013873 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 652103013874 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 652103013875 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 652103013876 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 652103013877 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 652103013878 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 652103013879 MoFe protein beta/alpha subunit interactions; other site 652103013880 Beta subunit P cluster binding residues; other site 652103013881 MoFe protein beta subunit/Fe protein contacts; other site 652103013882 MoFe protein dimer/ dimer interactions; other site 652103013883 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 652103013884 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 652103013885 MoFe protein alpha/beta subunit interactions; other site 652103013886 Alpha subunit P cluster binding residues; other site 652103013887 FeMoco binding residues [chemical binding]; other site 652103013888 MoFe protein alpha subunit/Fe protein contacts; other site 652103013889 MoFe protein dimer/ dimer interactions; other site 652103013890 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 652103013891 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 652103013892 Nucleotide-binding sites [chemical binding]; other site 652103013893 Walker A motif; other site 652103013894 Switch I region of nucleotide binding site; other site 652103013895 Fe4S4 binding sites [ion binding]; other site 652103013896 Switch II region of nucleotide binding site; other site 652103013897 SIR2-like domain; Region: SIR2_2; pfam13289 652103013898 NifT/FixU protein; Region: NifT; pfam06988 652103013899 NifZ domain; Region: NifZ; pfam04319 652103013900 NifZ domain; Region: NifZ; pfam04319 652103013901 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 652103013902 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 652103013903 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 652103013904 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 652103013905 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 652103013906 FeS/SAM binding site; other site 652103013907 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes 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 as part of...; Region: NifB; cd00852 652103013908 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 652103013909 Nif-specific regulatory protein; Region: nifA; TIGR01817 652103013910 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 652103013911 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 652103013912 Walker A motif; other site 652103013913 ATP binding site [chemical binding]; other site 652103013914 Walker B motif; other site 652103013915 arginine finger; other site 652103013916 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 652103013917 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103013918 classical (c) SDRs; Region: SDR_c; cd05233 652103013919 NAD(P) binding site [chemical binding]; other site 652103013920 active site 652103013921 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 652103013922 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 652103013923 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 652103013924 G1 box; other site 652103013925 GTP/Mg2+ binding site [chemical binding]; other site 652103013926 Switch I region; other site 652103013927 G2 box; other site 652103013928 G3 box; other site 652103013929 Switch II region; other site 652103013930 G4 box; other site 652103013931 G5 box; other site 652103013932 Nucleoside recognition; Region: Gate; pfam07670 652103013933 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 652103013934 Nucleoside recognition; Region: Gate; pfam07670 652103013935 FeoA domain; Region: FeoA; pfam04023 652103013936 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 652103013937 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 652103013938 HAMP domain; Region: HAMP; pfam00672 652103013939 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013940 dimer interface [polypeptide binding]; other site 652103013941 putative CheW interface [polypeptide binding]; other site 652103013942 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 652103013943 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 652103013944 dimer interface [polypeptide binding]; other site 652103013945 active site 652103013946 catalytic residue [active] 652103013947 metal binding site [ion binding]; metal-binding site 652103013948 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 652103013949 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 652103013950 intersubunit interface [polypeptide binding]; other site 652103013951 active site 652103013952 zinc binding site [ion binding]; other site 652103013953 Na+ binding site [ion binding]; other site 652103013954 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 652103013955 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 652103013956 TPP-binding site [chemical binding]; other site 652103013957 dimer interface [polypeptide binding]; other site 652103013958 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 652103013959 PYR/PP interface [polypeptide binding]; other site 652103013960 dimer interface [polypeptide binding]; other site 652103013961 TPP binding site [chemical binding]; other site 652103013962 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103013963 phosphoribulokinase; Provisional; Region: PRK15453 652103013964 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 652103013965 metal binding site [ion binding]; metal-binding site 652103013966 active site 652103013967 Esterase/lipase [General function prediction only]; Region: COG1647 652103013968 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 652103013969 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 652103013970 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 652103013971 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 652103013972 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 652103013973 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 652103013974 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 652103013975 Flagellar protein FliS; Region: FliS; cl00654 652103013976 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 652103013977 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 652103013978 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 652103013979 flagellin; Provisional; Region: PRK12802 652103013980 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103013981 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 652103013982 RNA polymerase sigma factor; Provisional; Region: PRK12538 652103013983 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103013984 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 652103013985 DNA binding residues [nucleotide binding] 652103013986 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 652103013987 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 652103013988 active site 652103013989 homotetramer interface [polypeptide binding]; other site 652103013990 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 652103013991 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 652103013992 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103013993 putative substrate translocation pore; other site 652103013994 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 652103013995 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103013996 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 652103013997 dimerization interface [polypeptide binding]; other site 652103013998 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013999 dimer interface [polypeptide binding]; other site 652103014000 putative CheW interface [polypeptide binding]; other site 652103014001 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 652103014002 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 652103014003 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 652103014004 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103014005 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 652103014006 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103014007 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 652103014008 FAD binding domain; Region: FAD_binding_4; pfam01565 652103014009 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 652103014010 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103014011 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103014012 fumarylacetoacetase; Region: PLN02856 652103014013 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 652103014014 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 652103014015 maleylacetoacetate isomerase; Region: maiA; TIGR01262 652103014016 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 652103014017 C-terminal domain interface [polypeptide binding]; other site 652103014018 GSH binding site (G-site) [chemical binding]; other site 652103014019 putative dimer interface [polypeptide binding]; other site 652103014020 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 652103014021 dimer interface [polypeptide binding]; other site 652103014022 N-terminal domain interface [polypeptide binding]; other site 652103014023 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 652103014024 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 652103014025 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 652103014026 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 652103014027 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 652103014028 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 652103014029 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103014030 MarR family; Region: MarR_2; pfam12802 652103014031 MarR family; Region: MarR_2; cl17246 652103014032 Caspase domain; Region: Peptidase_C14; pfam00656 652103014033 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 652103014034 binding surface 652103014035 TPR repeat; Region: TPR_11; pfam13414 652103014036 TPR motif; other site 652103014037 TPR repeat; Region: TPR_11; pfam13414 652103014038 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 652103014039 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103014040 ligand binding site [chemical binding]; other site 652103014041 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 652103014042 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103014043 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103014044 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103014045 Protein export membrane protein; Region: SecD_SecF; cl14618 652103014046 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 652103014047 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103014048 HlyD family secretion protein; Region: HlyD_3; pfam13437 652103014049 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 652103014050 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 652103014051 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103014052 active site 652103014053 nucleotide binding site [chemical binding]; other site 652103014054 HIGH motif; other site 652103014055 KMSKS motif; other site 652103014056 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 652103014057 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 652103014058 substrate binding pocket [chemical binding]; other site 652103014059 membrane-bound complex binding site; other site 652103014060 hinge residues; other site 652103014061 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 652103014062 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 652103014063 active site 652103014064 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 652103014065 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 652103014066 Cu(I) binding site [ion binding]; other site 652103014067 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 652103014068 HAMP domain; Region: HAMP; pfam00672 652103014069 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103014070 dimer interface [polypeptide binding]; other site 652103014071 putative CheW interface [polypeptide binding]; other site 652103014072 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 652103014073 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 652103014074 active site 652103014075 FMN binding site [chemical binding]; other site 652103014076 substrate binding site [chemical binding]; other site 652103014077 homotetramer interface [polypeptide binding]; other site 652103014078 catalytic residue [active] 652103014079 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 652103014080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103014081 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103014082 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 652103014083 putative dimerization interface [polypeptide binding]; other site 652103014084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 652103014085 Amidohydrolase; Region: Amidohydro_2; pfam04909 652103014086 hypothetical protein; Provisional; Region: PRK09262 652103014087 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 652103014088 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 652103014089 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 652103014090 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 652103014091 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 652103014092 active site 652103014093 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 652103014094 tetramer interface [polypeptide binding]; other site 652103014095 dimer interface [polypeptide binding]; other site 652103014096 active site 652103014097 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 652103014098 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 652103014099 active site 652103014100 Fe(II) binding site [ion binding]; other site 652103014101 dimer interface [polypeptide binding]; other site 652103014102 tetramer interface [polypeptide binding]; other site 652103014103 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 652103014104 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 652103014105 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 652103014106 metal binding site [ion binding]; metal-binding site 652103014107 Predicted membrane protein [Function unknown]; Region: COG1238 652103014108 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 652103014109 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 652103014110 FMN binding site [chemical binding]; other site 652103014111 substrate binding site [chemical binding]; other site 652103014112 putative catalytic residue [active] 652103014113 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 652103014114 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 652103014115 active site 1 [active] 652103014116 active site 2 [active] 652103014117 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 652103014118 Predicted integral membrane protein [Function unknown]; Region: COG5616 652103014119 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 652103014120 TPR motif; other site 652103014121 binding surface 652103014122 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 652103014123 TPR motif; other site 652103014124 TPR repeat; Region: TPR_11; pfam13414 652103014125 binding surface 652103014126 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 652103014127 active site 652103014128 catalytic residues [active] 652103014129 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 652103014130 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 652103014131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103014132 Walker A/P-loop; other site 652103014133 ATP binding site [chemical binding]; other site 652103014134 Q-loop/lid; other site 652103014135 ABC transporter signature motif; other site 652103014136 Walker B; other site 652103014137 D-loop; other site 652103014138 H-loop/switch region; other site 652103014139 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 652103014140 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 652103014141 dimer interface [polypeptide binding]; other site 652103014142 conserved gate region; other site 652103014143 putative PBP binding loops; other site 652103014144 ABC-ATPase subunit interface; other site 652103014145 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 652103014146 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 652103014147 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 652103014148 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 652103014149 molybdenum-pterin binding domain; Region: Mop; TIGR00638 652103014150 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 652103014151 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 652103014152 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 652103014153 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 652103014154 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 652103014155 dimer interface [polypeptide binding]; other site 652103014156 PYR/PP interface [polypeptide binding]; other site 652103014157 TPP binding site [chemical binding]; other site 652103014158 substrate binding site [chemical binding]; other site 652103014159 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 652103014160 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 652103014161 4Fe-4S binding domain; Region: Fer4_6; pfam12837 652103014162 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 652103014163 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 652103014164 dimer interface [polypeptide binding]; other site 652103014165 TPP-binding site [chemical binding]; other site 652103014166 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 652103014167 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 652103014168 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 652103014169 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 652103014170 FAD binding pocket [chemical binding]; other site 652103014171 FAD binding motif [chemical binding]; other site 652103014172 phosphate binding motif [ion binding]; other site 652103014173 beta-alpha-beta structure motif; other site 652103014174 NAD binding pocket [chemical binding]; other site 652103014175 Iron coordination center [ion binding]; other site 652103014176 5'-3' exonuclease; Region: 53EXOc; smart00475 652103014177 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 652103014178 active site 652103014179 metal binding site 1 [ion binding]; metal-binding site 652103014180 putative 5' ssDNA interaction site; other site 652103014181 metal binding site 3; metal-binding site 652103014182 metal binding site 2 [ion binding]; metal-binding site 652103014183 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 652103014184 putative DNA binding site [nucleotide binding]; other site 652103014185 putative metal binding site [ion binding]; other site 652103014186 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 652103014187 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 652103014188 active site 652103014189 catalytic site [active] 652103014190 substrate binding site [chemical binding]; other site 652103014191 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 652103014192 active site 652103014193 DNA binding site [nucleotide binding] 652103014194 catalytic site [active] 652103014195 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103014196 active site 652103014197 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 652103014198 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 652103014199 homodimer interface [polypeptide binding]; other site 652103014200 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 652103014201 active site pocket [active] 652103014202 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 652103014203 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 652103014204 agmatinase; Region: agmatinase; TIGR01230 652103014205 Arginase family; Region: Arginase; cd09989 652103014206 active site 652103014207 Mn binding site [ion binding]; other site 652103014208 oligomer interface [polypeptide binding]; other site 652103014209 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 652103014210 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103014211 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103014212 ABC transporter; Region: ABC_tran_2; pfam12848 652103014213 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 652103014214 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 652103014215 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 652103014216 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 652103014217 putative active site pocket [active] 652103014218 dimerization interface [polypeptide binding]; other site 652103014219 putative catalytic residue [active] 652103014220 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 652103014221 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 652103014222 putative acyl-acceptor binding pocket; other site 652103014223 Uncharacterized conserved protein [Function unknown]; Region: COG1434 652103014224 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 652103014225 putative active site [active] 652103014226 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 652103014227 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 652103014228 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 652103014229 Walker A/P-loop; other site 652103014230 ATP binding site [chemical binding]; other site 652103014231 Q-loop/lid; other site 652103014232 ABC transporter signature motif; other site 652103014233 Walker B; other site 652103014234 D-loop; other site 652103014235 H-loop/switch region; other site 652103014236 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 652103014237 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 652103014238 Response regulator receiver domain; Region: Response_reg; pfam00072 652103014239 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103014240 active site 652103014241 phosphorylation site [posttranslational modification] 652103014242 intermolecular recognition site; other site 652103014243 dimerization interface [polypeptide binding]; other site 652103014244 TIGR02302 family protein; Region: aProt_lowcomp 652103014245 Pex19 protein family; Region: Pex19; pfam04614 652103014246 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103014247 diaminopimelate decarboxylase; Region: lysA; TIGR01048 652103014248 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 652103014249 active site 652103014250 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103014251 substrate binding site [chemical binding]; other site 652103014252 catalytic residues [active] 652103014253 dimer interface [polypeptide binding]; other site 652103014254 argininosuccinate lyase; Provisional; Region: PRK00855 652103014255 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 652103014256 active sites [active] 652103014257 tetramer interface [polypeptide binding]; other site 652103014258 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 652103014259 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 652103014260 catalytic residues [active] 652103014261 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 652103014262 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 652103014263 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 652103014264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103014265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 652103014266 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 652103014267 putative effector binding pocket; other site 652103014268 dimerization interface [polypeptide binding]; other site 652103014269 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 652103014270 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 652103014271 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 652103014272 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 652103014273 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 652103014274 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 652103014275 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 652103014276 Ligand binding site [chemical binding]; other site 652103014277 Electron transfer flavoprotein domain; Region: ETF; pfam01012 652103014278 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 652103014279 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 652103014280 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 652103014281 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 652103014282 dimer interface [polypeptide binding]; other site 652103014283 phosphorylation site [posttranslational modification] 652103014284 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 652103014285 ATP binding site [chemical binding]; other site 652103014286 Mg2+ binding site [ion binding]; other site 652103014287 G-X-G motif; other site 652103014288 Response regulator receiver domain; Region: Response_reg; pfam00072 652103014289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103014290 active site 652103014291 phosphorylation site [posttranslational modification] 652103014292 intermolecular recognition site; other site 652103014293 dimerization interface [polypeptide binding]; other site 652103014294 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 652103014295 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 652103014296 active site 652103014297 HIGH motif; other site 652103014298 nucleotide binding site [chemical binding]; other site 652103014299 active site 652103014300 KMSKS motif; other site 652103014301 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 652103014302 helix-hairpin-helix signature motif; other site 652103014303 active site 652103014304 nickel responsive regulator; Provisional; Region: PRK02967 652103014305 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 652103014306 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 652103014307 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 652103014308 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103014309 PRC-barrel domain; Region: PRC; pfam05239 652103014310 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 652103014311 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 652103014312 active site 652103014313 catalytic site [active] 652103014314 Transposase domain (DUF772); Region: DUF772; pfam05598 652103014315 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 652103014316 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 652103014317 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 652103014318 DNA binding site [nucleotide binding] 652103014319 active site 652103014320 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_3; cd13148 652103014321 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 652103014322 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 652103014323 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 652103014324 putative active site [active] 652103014325 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 652103014326 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 652103014327 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 652103014328 trimer interface [polypeptide binding]; other site 652103014329 active site 652103014330 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 652103014331 trimer interface [polypeptide binding]; other site 652103014332 active site 652103014333 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 652103014334 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 652103014335 homodimer interface [polypeptide binding]; other site 652103014336 substrate-cofactor binding pocket; other site 652103014337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103014338 catalytic residue [active] 652103014339 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 652103014340 dimer interface [polypeptide binding]; other site 652103014341 phosphorylation site [posttranslational modification] 652103014342 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 652103014343 ATP binding site [chemical binding]; other site 652103014344 Mg2+ binding site [ion binding]; other site 652103014345 G-X-G motif; other site 652103014346 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103014347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103014348 active site 652103014349 phosphorylation site [posttranslational modification] 652103014350 intermolecular recognition site; other site 652103014351 dimerization interface [polypeptide binding]; other site 652103014352 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 652103014353 DNA binding site [nucleotide binding] 652103014354 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 652103014355 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 652103014356 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 652103014357 DsbD alpha interface [polypeptide binding]; other site 652103014358 catalytic residues [active] 652103014359 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 652103014360 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 652103014361 catalytic residues [active] 652103014362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103014363 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103014364 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 652103014365 active site 652103014366 oxyanion hole [active] 652103014367 catalytic triad [active] 652103014368 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 652103014369 active site 652103014370 oxyanion hole [active] 652103014371 OpgC protein; Region: OpgC_C; pfam10129 652103014372 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 652103014373 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 652103014374 dimerization interface [polypeptide binding]; other site 652103014375 domain crossover interface; other site 652103014376 redox-dependent activation switch; other site 652103014377 ornithine carbamoyltransferase; Provisional; Region: PRK00779 652103014378 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 652103014379 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 652103014380 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 652103014381 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 652103014382 inhibitor-cofactor binding pocket; inhibition site 652103014383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103014384 catalytic residue [active] 652103014385 GcrA cell cycle regulator; Region: GcrA; pfam07750 652103014386 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 652103014387 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103014388 active site 652103014389 phosphorylation site [posttranslational modification] 652103014390 intermolecular recognition site; other site 652103014391 dimerization interface [polypeptide binding]; other site 652103014392 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 652103014393 DNA binding site [nucleotide binding] 652103014394 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 652103014395 PhoU domain; Region: PhoU; pfam01895 652103014396 PhoU domain; Region: PhoU; pfam01895 652103014397 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 652103014398 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 652103014399 Walker A/P-loop; other site 652103014400 ATP binding site [chemical binding]; other site 652103014401 Q-loop/lid; other site 652103014402 ABC transporter signature motif; other site 652103014403 Walker B; other site 652103014404 D-loop; other site 652103014405 H-loop/switch region; other site 652103014406 Protein of unknown function (DUF962); Region: DUF962; cl01879 652103014407 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 652103014408 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 652103014409 dimer interface [polypeptide binding]; other site 652103014410 conserved gate region; other site 652103014411 putative PBP binding loops; other site 652103014412 ABC-ATPase subunit interface; other site 652103014413 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 652103014414 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 652103014415 dimer interface [polypeptide binding]; other site 652103014416 conserved gate region; other site 652103014417 putative PBP binding loops; other site 652103014418 ABC-ATPase subunit interface; other site 652103014419 PBP superfamily domain; Region: PBP_like_2; cl17296 652103014420 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 652103014421 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 652103014422 dimer interface [polypeptide binding]; other site 652103014423 phosphorylation site [posttranslational modification] 652103014424 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 652103014425 ATP binding site [chemical binding]; other site 652103014426 Mg2+ binding site [ion binding]; other site 652103014427 G-X-G motif; other site 652103014428 Predicted integral membrane protein [Function unknown]; Region: COG0392 652103014429 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 652103014430 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103014431 ligand binding site [chemical binding]; other site 652103014432 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 652103014433 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 652103014434 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 652103014435 putative active site [active] 652103014436 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 652103014437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103014438 NAD(P) binding site [chemical binding]; other site 652103014439 active site 652103014440 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 652103014441 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 652103014442 non-specific DNA binding site [nucleotide binding]; other site 652103014443 salt bridge; other site 652103014444 sequence-specific DNA binding site [nucleotide binding]; other site 652103014445 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 652103014446 ADP binding site [chemical binding]; other site 652103014447 magnesium binding site [ion binding]; other site 652103014448 putative shikimate binding site; other site 652103014449 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 652103014450 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 652103014451 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103014452 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 652103014453 dimerization interface [polypeptide binding]; other site 652103014454 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 652103014455 ATP binding site [chemical binding]; other site 652103014456 Mg2+ binding site [ion binding]; other site 652103014457 G-X-G motif; other site 652103014458 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103014459 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 652103014460 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103014461 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 652103014462 dimer interface [polypeptide binding]; other site 652103014463 phosphorylation site [posttranslational modification] 652103014464 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 652103014465 ATP binding site [chemical binding]; other site 652103014466 Mg2+ binding site [ion binding]; other site 652103014467 G-X-G motif; other site 652103014468 osmolarity response regulator; Provisional; Region: ompR; PRK09468 652103014469 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103014470 active site 652103014471 phosphorylation site [posttranslational modification] 652103014472 intermolecular recognition site; other site 652103014473 dimerization interface [polypeptide binding]; other site 652103014474 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 652103014475 DNA binding site [nucleotide binding] 652103014476 RNA polymerase sigma factor; Provisional; Region: PRK12515 652103014477 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103014478 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 652103014479 DNA binding residues [nucleotide binding] 652103014480 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 652103014481 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 652103014482 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 652103014483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103014484 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 652103014485 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 652103014486 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 652103014487 substrate binding pocket [chemical binding]; other site 652103014488 membrane-bound complex binding site; other site 652103014489 hinge residues; other site 652103014490 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 652103014491 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103014492 active site 652103014493 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 652103014494 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103014495 active site 652103014496 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 652103014497 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 652103014498 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103014499 putative substrate translocation pore; other site 652103014500 Protein of unknown function (DUF938); Region: DUF938; pfam06080 652103014501 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103014502 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 652103014503 N-terminal plug; other site 652103014504 ligand-binding site [chemical binding]; other site 652103014505 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_8; cd06343 652103014506 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103014507 putative ligand binding site [chemical binding]; other site 652103014508 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103014509 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 652103014510 Walker A/P-loop; other site 652103014511 ATP binding site [chemical binding]; other site 652103014512 Q-loop/lid; other site 652103014513 ABC transporter signature motif; other site 652103014514 Walker B; other site 652103014515 D-loop; other site 652103014516 H-loop/switch region; other site 652103014517 FtsX-like permease family; Region: FtsX; pfam02687 652103014518 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 652103014519 MAPEG family; Region: MAPEG; pfam01124 652103014520 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103014521 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 652103014522 putative ligand binding site [chemical binding]; other site 652103014523 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 652103014524 heat shock protein 90; Provisional; Region: PRK05218 652103014525 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 652103014526 ATP binding site [chemical binding]; other site 652103014527 Mg2+ binding site [ion binding]; other site 652103014528 G-X-G motif; other site 652103014529 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103014530 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 652103014531 ATP binding site [chemical binding]; other site 652103014532 Mg2+ binding site [ion binding]; other site 652103014533 G-X-G motif; other site 652103014534 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103014535 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103014536 active site 652103014537 phosphorylation site [posttranslational modification] 652103014538 intermolecular recognition site; other site 652103014539 dimerization interface [polypeptide binding]; other site 652103014540 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 652103014541 DNA binding site [nucleotide binding] 652103014542 Predicted membrane protein [Function unknown]; Region: COG3212 652103014543 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 652103014544 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 652103014545 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 652103014546 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 652103014547 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 652103014548 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 652103014549 active site 652103014550 dimer interface [polypeptide binding]; other site 652103014551 metal binding site [ion binding]; metal-binding site 652103014552 acyl-CoA synthetase; Provisional; Region: PRK13391 652103014553 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 652103014554 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 652103014555 acyl-activating enzyme (AAE) consensus motif; other site 652103014556 acyl-activating enzyme (AAE) consensus motif; other site 652103014557 putative AMP binding site [chemical binding]; other site 652103014558 putative active site [active] 652103014559 putative CoA binding site [chemical binding]; other site 652103014560 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 652103014561 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 652103014562 ATP binding site [chemical binding]; other site 652103014563 putative Mg++ binding site [ion binding]; other site 652103014564 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 652103014565 nucleotide binding region [chemical binding]; other site 652103014566 ATP-binding site [chemical binding]; other site 652103014567 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 652103014568 HRDC domain; Region: HRDC; pfam00570 652103014569 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 652103014570 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 652103014571 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 652103014572 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103014573 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 652103014574 acyl-activating enzyme (AAE) consensus motif; other site 652103014575 putative AMP binding site [chemical binding]; other site 652103014576 putative active site [active] 652103014577 putative CoA binding site [chemical binding]; other site 652103014578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 652103014579 active site 652103014580 phosphorylation site [posttranslational modification] 652103014581 intermolecular recognition site; other site 652103014582 dimerization interface [polypeptide binding]; other site 652103014583 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 652103014584 Zn2+ binding site [ion binding]; other site 652103014585 Mg2+ binding site [ion binding]; other site 652103014586 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 652103014587 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 652103014588 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 652103014589 SLBB domain; Region: SLBB; pfam10531 652103014590 methionine sulfoxide reductase A; Provisional; Region: PRK00058 652103014591 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239